Databases Overview

Taxonomic Range:

Brassica napus

Protein Sequence Source:

EnsemblPlants v34: Brassica_napus.AST_PRJEB5043_v1.pep.all.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OilseedrapeCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3240

Number of Compounds:

2403

Number of Enzymes:

21067

Number of Citations:

3994

RedsageCyc 3.0

Parent

Overview

Released:

Salvia miltiorrhiza Bunge

Taxonomic Range:

Protein Sequence Source:

TCM Genome and Transcriptome Database: salvia_cds_pep.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

RedsageCyc

Content Statistics

Number of Pathways:

495

Number of Reactions:

3178

Number of Compounds:

2398

Number of Enzymes:

7361

Number of Citations:

3872

TparvulaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Thellungiella parvula

Protein Sequence Source:

Thellungiella.org: TpV84ORFs.protein‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

TparvulaCyc

Content Statistics

Number of Pathways:

475

Number of Reactions:

3050

Number of Compounds:

2229

Number of Enzymes:

5908

Number of Citations:

3655

CacuminataCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Camptotheca acuminata

Protein Sequence Source:

Medicinal Plant Genomics Resource: cac_hc_gene_models.repr.pep

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CacuminataCyc

Content Statistics

Number of Pathways:

489

Number of Reactions:

3146

Number of Compounds:

2355

Number of Enzymes:

7360

Number of Citations:

3881

ObarthiiCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Oryza barthii

Protein Sequence Source:

Ensembl: Oryza_barthii.O.barthii_v1.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

ObarthiiCyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3097

Number of Compounds:

2316

Number of Enzymes:

7994

Number of Citations:

3934

CornCyc 10.0

Parent

Overview

Released:

Taxonomic Range:

Zea mays mays

Protein Sequence Source:

EnsemblPlants: Zea_mays.B73_RefGen_v4.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc and MaizeGDB based on experimental evidence or curator inference

Link to PGDB:

CornCyc

Content Statistics

Number of Pathways:

556

Number of Reactions:

3377

Number of Compounds:

2592

Number of Enzymes:

27682

Number of Citations:

5245

KfedtschenkoiCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Kalanchoe fedtschenkoi

Protein Sequence Source:

Phytozome v12: Kfedtschenkoi_382_v1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

KfedtschenkoiCyc

Content Statistics

Number of Pathways:

482

Number of Reactions:

3061

Number of Compounds:

2294

Number of Enzymes:

10385

Number of Citations:

3814

OlucimarinusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Ostreococcus lucimarinus

Protein Sequence Source:

Phytozome v12: Olucimarinus_231_v2.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OlucimarinusCyc

Content Statistics

Number of Pathways:

294

Number of Reactions:

1953

Number of Compounds:

1425

Number of Enzymes:

1701

Number of Citations:

2727

RmultifloraCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Rosa multiflora

Protein Sequence Source:

Kazusa Genome Database: RMU_r2.0.pep

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

RmultifloraCyc

Content Statistics

Number of Pathways:

512

Number of Reactions:

3279

Number of Compounds:

2483

Number of Enzymes:

13358

Number of Citations:

4011

AcoeruleaCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Aquilegia coerulea

Protein Sequence Source:

Phytozome v12: Acoerulea_322_v3.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

AcoeruleaCyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3120

Number of Compounds:

2328

Number of Enzymes:

9985

Number of Citations:

3924

VcarteriCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Volvox carteri

Protein Sequence Source:

Phytozome v12: Vcarteri_317_v2.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

VcarteriCyc

Content Statistics

Number of Pathways:

321

Number of Reactions:

2272

Number of Compounds:

1635

Number of Enzymes:

2804

Number of Citations:

2769

CannuumCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Capsicum annuum

Protein Sequence Source:

SGN: Pepper.v.1.55.PEP.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CannuumCyc

Content Statistics

Number of Pathways:

512

Number of Reactions:

3147

Number of Compounds:

2420

Number of Enzymes:

8164

Number of Citations:

4136

OilpalmCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Elaeis guineensis

Protein Sequence Source:

Plaza 4.0: proteome.all_transcripts.egu.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OilpalmCyc

Content Statistics

Number of Pathways:

459

Number of Reactions:

2906

Number of Compounds:

2181

Number of Enzymes:

9243

Number of Citations:

3769

CroseusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Catharanthus roseus

Protein Sequence Source:

Medicinal Plant Genomics Resource: cro_v2.proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CroseusCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3069

Number of Compounds:

2301

Number of Enzymes:

5483

Number of Citations:

4004

KlaxifloraCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Kalanchoe laxiflora

Protein Sequence Source:

Phytozome v12: Klaxiflora_309_v1.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

KlaxifloraCyc

Content Statistics

Number of Pathways:

472

Number of Reactions:

3023

Number of Compounds:

2260

Number of Enzymes:

16279

Number of Citations:

3790

OpunctataCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza punctata

Protein Sequence Source:

EnsemblPlants v34: Oryza_punctata.Oryza_punctata_v1.2.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OpunctataCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3022

Number of Compounds:

2273

Number of Enzymes:

8371

Number of Citations:

3888

SelaginellaCyc 8.0

Parent

Overview

Released:

Selaginella moellendorffii

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Smoellendorffii_91_v1.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SelaginellaCyc

Content Statistics

Number of Pathways:

422

Number of Reactions:

2799

Number of Compounds:

2087

Number of Enzymes:

6216

Number of Citations:

3417

AhalleriCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Arabidopsis halleri

Protein Sequence Source:

Phytozome v11 (early): Ahalleri_264_v1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AhalleriCyc

Content Statistics

Number of Pathways:

470

Number of Reactions:

3062

Number of Compounds:

2231

Number of Enzymes:

6163

Number of Citations:

3600

WheataCyc 5.0

Parent

Overview

Released:

Taxonomic Range:

Triticum urartu

Protein Sequence Source:

EnsemblPlants v34: Triticum_urartu.ASM34745v1.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

WheataCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3121

Number of Compounds:

2328

Number of Enzymes:

7186

Number of Citations:

3864

Carietinum_Icc4958Cyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Cicer arietinum ICC4958

Protein Sequence Source:

CSFL: Ca_Pep_v2.fasta.txt

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Carietinum_Icc4958Cyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3236

Number of Compounds:

2365

Number of Enzymes:

6633

Number of Citations:

3912

OlongistaminataCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Oryza longistaminata

Protein Sequence Source:

Ensembl: Oryza_longistaminata.O_longistaminata_v1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OlongistaminataCyc

Content Statistics

Number of Pathways:

498

Number of Reactions:

3089

Number of Compounds:

2329

Number of Enzymes:

7031

Number of Citations:

3938

CrubellaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Capsella rubella

Protein Sequence Source:

Phytozome v12: Crubella_474_v1.1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CrubellaCyc

Content Statistics

Number of Pathways:

472

Number of Reactions:

3015

Number of Compounds:

2205

Number of Enzymes:

6609

Number of Citations:

3628

LjaponicusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Lotus japonicus

Protein Sequence Source:

Kazusa Genome Database: Lj3.0_pep.fna

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LjaponicusCyc

Content Statistics

Number of Pathways:

506

Number of Reactions:

3234

Number of Compounds:

2426

Number of Enzymes:

9975

Number of Citations:

4022

OrufipogonCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza rufipogon

Protein Sequence Source:

EnsemblPlants v34: Oryza_rufipogon.OR_W1943.pep.all.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OrufipogonCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3118

Number of Compounds:

2332

Number of Enzymes:

8833

Number of Citations:

3942

SetariaCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Setaria italica

Protein Sequence Source:

Phytozome v11: Sitalica_312_v2.2.protein_primaryTranscriptOnly.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SetariaCyc

Content Statistics

Number of Pathways:

489

Number of Reactions:

3052

Number of Compounds:

2270

Number of Enzymes:

9156

Number of Citations:

3857

AhypochondriacusCyc 3.0

Parent

Overview

Released:

Amaranthus hypochondriacus

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Ahypochondriacus_459_v2.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AhypochondriacusCyc

Content Statistics

Number of Pathways:

485

Number of Reactions:

2984

Number of Compounds:

2217

Number of Enzymes:

5496

Number of Citations:

3888

WheatdCyc 5.0

Parent

Overview

Released:

Taxonomic Range:

Aegilops tauschii

Protein Sequence Source:

EnsemblPlants v34: Aegilops_tauschii.ASM34733v1.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

WheatdCyc

Content Statistics

Number of Pathways:

520

Number of Reactions:

3611

Number of Compounds:

2704

Number of Enzymes:

57062

Number of Citations:

4034

CarnationCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Dianthus caryophyllus

Protein Sequence Source:

Kazusa Genome Database: DCA_r1.0_pep.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CarnationCyc

Content Statistics

Number of Pathways:

490

Number of Reactions:

3106

Number of Compounds:

2341

Number of Enzymes:

7514

Number of Citations:

3958

OmeridionalisCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Oryza meridionalis

Protein Sequence Source:

Ensembl: Oryza_meridionalis.Oryza_meridionalis_v1.3.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OmeridionalisCyc

Content Statistics

Number of Pathways:

475

Number of Reactions:

2966

Number of Compounds:

2277

Number of Enzymes:

8608

Number of Citations:

3903

Csativa_PkCyc 3.0

Parent

Overview

Released:

Cannabis sativa Purple Kush

Taxonomic Range:

Protein Sequence Source:

Cannabis genome project (http://genome.ccbr.utoronto.ca): canSat3_transcriptome-representative_ORFs.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Csativa_PkCyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3142

Number of Compounds:

2328

Number of Enzymes:

5872

Number of Citations:

3908

LperrieriCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Leersia perrieri

Protein Sequence Source:

EnsemblPlants v34: Leersia_perrieri.Lperr_V1.4.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LperrieriCyc

Content Statistics

Number of Pathways:

488

Number of Reactions:

3018

Number of Compounds:

2260

Number of Enzymes:

8210

Number of Citations:

3883

OryzaCyc 7.0

Parent

Overview

Released:

Oryza sativa japonica group

Taxonomic Range:

Protein Sequence Source:

EnsemblPlants: Oryza_sativa.IRGSP-1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

OryzaCyc

Content Statistics

Number of Pathways:

606

Number of Reactions:

3846

Number of Compounds:

2987

Number of Enzymes:

14682

Number of Citations:

5193

SfallaxCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Sphagnum fallax

Protein Sequence Source:

Phytozome v12: Sfallax_310_v0.5.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SfallaxCyc

Content Statistics

Number of Pathways:

403

Number of Reactions:

2655

Number of Compounds:

1955

Number of Enzymes:

6745

Number of Citations:

3262

AlyrataCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Arabidopsis lyrata

Protein Sequence Source:

Phytozome v12: Alyrata_384_v2.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AlyrataCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3057

Number of Compounds:

2232

Number of Enzymes:

7122

Number of Citations:

3706

ZmarinaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Zostera marina

Protein Sequence Source:

Phytozome v12: Zmarina_324_v2.2.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

ZmarinaCyc

Content Statistics

Number of Pathways:

436

Number of Reactions:

2672

Number of Compounds:

1967

Number of Enzymes:

4638

Number of Citations:

3468

CarrotCyc 3.0

Parent

Overview

Released:

Daucus carota subsp. Sativus

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Dcarota_388_v2.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CarrotCyc

Content Statistics

Number of Pathways:

486

Number of Reactions:

3033

Number of Compounds:

2253

Number of Enzymes:

7185

Number of Citations:

3883

OnivaraCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Oryza nivara

Protein Sequence Source:

Ensembl: Oryza_nivara.Oryza_nivara_v1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OnivaraCyc

Content Statistics

Number of Pathways:

495

Number of Reactions:

3076

Number of Compounds:

2295

Number of Enzymes:

9055

Number of Citations:

3928

CsubellipsoideaCyc 3.0

Parent

Overview

Released:

Coccomyxa subellipsoidea C-169

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: CsubellipsoideaC_169_227_v2.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CsubellipsoideaCyc

Content Statistics

Number of Pathways:

312

Number of Reactions:

2256

Number of Compounds:

1648

Number of Enzymes:

2266

Number of Citations:

2889

McommodaCyc 3.0

Parent

Overview

Released:

Micromonas commoda RCC299

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: MspRCC299_229_v3.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

McommodaCyc

Content Statistics

Number of Pathways:

310

Number of Reactions:

2171

Number of Compounds:

1564

Number of Enzymes:

2044

Number of Citations:

2778

MdomesticaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Malus domestica

Protein Sequence Source:

The Apple Genome and Epigenome: GDDH13_1-1_prot.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MdomesticaCyc

Content Statistics

Number of Pathways:

508

Number of Reactions:

3179

Number of Compounds:

2393

Number of Enzymes:

10558

Number of Citations:

4049

OthomaeumCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oropetium thomaeum

Protein Sequence Source:

Phytozome v12: Othomaeum_386_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OthomaeumCyc

Content Statistics

Number of Pathways:

460

Number of Reactions:

2868

Number of Compounds:

2135

Number of Enzymes:

5389

Number of Citations:

3756

SoleraceaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Spinacia oleracea

Protein Sequence Source:

The Beta vulgaris Resource: SpiSet-1.genes.1408.pep‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SoleraceaCyc

Content Statistics

Number of Pathways:

490

Number of Reactions:

3016

Number of Compounds:

2229

Number of Enzymes:

5237

Number of Citations:

4013

AmborellaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Amborella trichopoda

Protein Sequence Source:

Phytozome v12: Atrichopoda_291_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AmborellaCyc

Content Statistics

Number of Pathways:

472

Number of Reactions:

3074

Number of Compounds:

2292

Number of Enzymes:

5324

Number of Citations:

3816

CcampestrisCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Cuscuta campestris

Protein Sequence Source:

Cuscuta campestris Genome Project: data_cucam_0.32.annot.protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CcampestrisCyc

Content Statistics

Number of Pathways:

470

Number of Reactions:

2901

Number of Compounds:

2156

Number of Enzymes:

9592

Number of Citations:

3653

CashewCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Anacardium occidentale

Protein Sequence Source:

Phytozome v12: Aoccidentale_449_v0.9.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CashewCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3150

Number of Compounds:

2357

Number of Enzymes:

18887

Number of Citations:

3957

PigeonpeaCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Cajanus Cajan

Protein Sequence Source:

Legume Information System: cajca.ICPL87119.gnm1.ann1.Y27M.protein_main.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

PigeonpeaCyc

Content Statistics

Number of Pathways:

498

Number of Reactions:

3157

Number of Compounds:

2346

Number of Enzymes:

7345

Number of Citations:

3911

CucumberCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Cucumis sativus

Protein Sequence Source:

Phytozome v12: Csativus_122_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CucumberCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

2917

Number of Compounds:

2155

Number of Enzymes:

7317

Number of Citations:

3875

MguttatusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Mimulus guttatus

Protein Sequence Source:

Phytozome v12: Mguttatus_256_v2.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MguttatusCyc

Content Statistics

Number of Pathways:

487

Number of Reactions:

3074

Number of Compounds:

2340

Number of Enzymes:

7771

Number of Citations:

3839

PapayaCyc 8.0

Parent

Overview

Released:

Taxonomic Range:

Carica papaya

Protein Sequence Source:

Phytozome v12: Cpapaya_113_ASGPBv0.4.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

PapayaCyc

Content Statistics

Number of Pathways:

485

Number of Reactions:

3114

Number of Compounds:

2314

Number of Enzymes:

5201

Number of Citations:

3806

SorghumbicolorCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Sorghum bicolor

Protein Sequence Source:

Phytozome v12: Sbicolor_454_v3.1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SorghumbicolorCyc

Content Statistics

Number of Pathways:

492

Number of Reactions:

3063

Number of Compounds:

2298

Number of Enzymes:

9924

Number of Citations:

3868

AraCyc 17.0

Parent

Overview

Released:

Taxonomic Range:

Arabidopsis thaliana col

Protein Sequence Source:

AraPort v11: Araport11_genes.201606.pep.repr.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AraCyc

Content Statistics

Number of Pathways:

650

Number of Reactions:

3793

Number of Compounds:

3030

Number of Enzymes:

8556

Number of Citations:

7221

CorkoakCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Quercus suber

Protein Sequence Source:

NCBI: GCF_002906115.1_CorkOak1.0_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CorkoakCyc

Content Statistics

Number of Pathways:

522

Number of Reactions:

3978

Number of Compounds:

3001

Number of Enzymes:

14428

Number of Citations:

4077

CassavaCyc 9.0

Parent

Overview

Released:

Manihot esculenta esculenta

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Mesculenta_511_v7.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CassavaCyc

Content Statistics

Number of Pathways:

492

Number of Reactions:

3111

Number of Compounds:

2322

Number of Enzymes:

8603

Number of Citations:

3864

RubbertreeCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Hevea brasiliensis

Protein Sequence Source:

Rubber Genome & Transcriptome Database: hevea_amino.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

RubbertreeCyc

Content Statistics

Number of Pathways:

516

Number of Reactions:

3334

Number of Compounds:

2528

Number of Enzymes:

9809

Number of Citations:

4036

CzofingiensisCyc 2.0

Parent

Overview

Released:

Chromochloris zofingiensis

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Czofingiensis_461_v5.2.3.2.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CzofingiensisCyc

Content Statistics

Number of Pathways:

332

Number of Reactions:

2567

Number of Compounds:

1927

Number of Enzymes:

2971

Number of Citations:

2900

MossCyc 8.0

Parent

Overview

Released:

Taxonomic Range:

Physcomitrella patens

Protein Sequence Source:

Phytozome v12: Ppatens_318_v3.3.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

MossCyc

Content Statistics

Number of Pathways:

415

Number of Reactions:

2868

Number of Compounds:

2046

Number of Enzymes:

17888

Number of Citations:

3330

PaxillarisCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Petunia axillaris

Protein Sequence Source:

SGN: Petunia_axillaris_v1.6.2_proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

PaxillarisCyc

Content Statistics

Number of Pathways:

505

Number of Reactions:

3217

Number of Compounds:

2425

Number of Enzymes:

8094

Number of Citations:

3946

SoyCyc 10.0

Parent

Overview

Released:

Taxonomic Range:

Glycine max

Protein Sequence Source:

Phytozome v12: Gmax_508_Wm82.a4.v1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SoyCyc

Content Statistics

Number of Pathways:

589

Number of Reactions:

3472

Number of Compounds:

2695

Number of Enzymes:

19055

Number of Citations:

5295

AsparagusCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Asparagus officinalis

Protein Sequence Source:

Phytozome v12: Aofficinalis_498_V1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

AsparagusCyc

Content Statistics

Number of Pathways:

462

Number of Reactions:

2974

Number of Compounds:

2247

Number of Enzymes:

5914

Number of Citations:

3757

CvariabilisCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Chlorella variabilis NC64A

Protein Sequence Source:

JGI: Chlorella_NC64A.fix_proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CvariabilisCyc

Content Statistics

Number of Pathways:

334

Number of Reactions:

2441

Number of Compounds:

1757

Number of Enzymes:

17511

Number of Citations:

2918

CastorbeanCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Ricinus communis

Protein Sequence Source:

Phytozome v12: Rcommunis_119_v0.1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CastorbeanCyc

Content Statistics

Number of Pathways:

521

Number of Reactions:

3756

Number of Compounds:

2840

Number of Enzymes:

6895

Number of Citations:

4047

SacredlotusCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Nelumbo nucifera

Protein Sequence Source:

NCBI: GCF_000365185.1_Chinese_Lotus_1.1_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SacredlotusCyc

Content Statistics

Number of Pathways:

471

Number of Reactions:

2961

Number of Compounds:

2219

Number of Enzymes:

8966

Number of Citations:

3756

DrotundataCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Dioscorea rotundata

Protein Sequence Source:

EnsemblPlants v38: Dioscorea_rotundata.TDr96_F1_Pseudo_Chromosome_v1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

DrotundataCyc

Content Statistics

Number of Pathways:

450

Number of Reactions:

2816

Number of Compounds:

2125

Number of Enzymes:

4721

Number of Citations:

3616

MpolymorphaCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Marchantia polymorpha

Protein Sequence Source:

Phytozome v12: Mpolymorpha_320_v3.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

MpolymorphaCyc

Content Statistics

Number of Pathways:

422

Number of Reactions:

2711

Number of Compounds:

1992

Number of Enzymes:

4841

Number of Citations:

3392

PhalliiCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Panicum hallii

Protein Sequence Source:

Phytozome v12: PhalliiHAL_496_v2.1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

PhalliiCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

3022

Number of Compounds:

2241

Number of Enzymes:

8704

Number of Citations:

3832

SpennelliiCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Solanum pennellii

Protein Sequence Source:

SGN: Spenn-v2-aa-annot.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SpennelliiCyc

Content Statistics

Number of Pathways:

508

Number of Reactions:

3176

Number of Compounds:

2357

Number of Enzymes:

7450

Number of Citations:

3994

BananaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Musa acuminata

Protein Sequence Source:

Banana Genome Hub: musa_acuminata_v2_prot.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

BananaCyc

Content Statistics

Number of Pathways:

480

Number of Reactions:

3027

Number of Compounds:

2268

Number of Enzymes:

9952

Number of Citations:

3856

DatepalmCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Phoenix dactylifera

Protein Sequence Source:

Date Palm Research Program: PDK30-pep.fsa.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

DatepalmCyc

Content Statistics

Number of Pathways:

466

Number of Reactions:

2891

Number of Compounds:

2164

Number of Enzymes:

6043

Number of Citations:

3805

CcapsularisCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Corchorus capsularis

Protein Sequence Source:

EnsemblPlants v38: Corchorus_capsularis.CCACVL1_1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CcapsularisCyc

Content Statistics

Number of Pathways:

482

Number of Reactions:

2966

Number of Compounds:

2177

Number of Enzymes:

5217

Number of Citations:

3840

SpiderflowerCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Tarenaya hassleriana

Protein Sequence Source:

NCBI: GCF_000463585.1_ASM46358v1_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SpiderflowerCyc

Content Statistics

Number of Pathways:

472

Number of Reactions:

3017

Number of Compounds:

2212

Number of Enzymes:

9139

Number of Citations:

3623

EggplantCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Solanum melongena

Protein Sequence Source:

Kazusas Genome Database: SME_r2.5.1_pep.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

EggplantCyc

Content Statistics

Number of Pathways:

508

Number of Reactions:

3215

Number of Compounds:

2375

Number of Enzymes:

6949

Number of Citations:

4070

MpusillaCyc 3.0

Parent

Overview

Released:

Micromonas pusilla CCMP1545

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: MpusillaCCMP1545_228_v3.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MpusillaCyc

Content Statistics

Number of Pathways:

301

Number of Reactions:

2085

Number of Compounds:

1539

Number of Enzymes:

1971

Number of Citations:

2755

PineappleCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Ananas comosus

Protein Sequence Source:

Phytozome v12: Acomosus_321_v3.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

PineappleCyc

Content Statistics

Number of Pathways:

464

Number of Reactions:

2894

Number of Compounds:

2149

Number of Enzymes:

5698

Number of Citations:

3776

SpirodelaCyc 5.0

Parent

Overview

Released:

Taxonomic Range:

Spirodela polyrhiza

Protein Sequence Source:

Phytozome v12: Spolyrhiza_290_v2.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SpirodelaCyc

Content Statistics

Number of Pathways:

455

Number of Reactions:

2748

Number of Compounds:

2018

Number of Enzymes:

4413

Number of Citations:

3634

BarleyCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Hordeum vulgare

Protein Sequence Source:

EnsemblPlants v38: Hordeum_vulgare.IBSC_v2.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

BarleyCyc

Content Statistics

Number of Pathways:

519

Number of Reactions:

3489

Number of Compounds:

2642

Number of Enzymes:

57690

Number of Citations:

4023

EuropeanpearCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Pyrus communis

Protein Sequence Source:

Genome Database for Rosaceae: Pyrus_communis_v1.0-proteins_hybrid.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

EuropeanpearCyc

Content Statistics

Number of Pathways:

497

Number of Reactions:

3132

Number of Compounds:

2322

Number of Enzymes:

10116

Number of Citations:

3949

CgiganteaCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Calotropis gigantea

Protein Sequence Source:

Medicinal Plant Genomics Resource: cal_hc_gene_models.rmscaff.repr.pep

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CgiganteaCyc

Content Statistics

Number of Pathways:

483

Number of Reactions:

2985

Number of Compounds:

2230

Number of Enzymes:

4760

Number of Citations:

3852

SweetcherryCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Prunis avium

Protein Sequence Source:

PAV_r1.0.proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SweetcherryCyc

Content Statistics

Number of Pathways:

501

Number of Reactions:

3130

Number of Compounds:

2342

Number of Enzymes:

6757

Number of Citations:

3966

EgrandisCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Eucalyptus grandis

Protein Sequence Source:

Phytozome v12: Egrandis_297_v2.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

EgrandisCyc

Content Statistics

Number of Pathways:

506

Number of Reactions:

3136

Number of Compounds:

2357

Number of Enzymes:

11549

Number of Citations:

3964

MsinensisCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Miscanthus sinensis

Protein Sequence Source:

Phytozome v12: Msinensis_497_v7.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

MsinensisCyc

Content Statistics

Number of Pathways:

494

Number of Reactions:

3206

Number of Compounds:

2394

Number of Enzymes:

17547

Number of Citations:

3865

PoplarCyc 12.0

Parent

Overview

Released:

Populus trichocarpa, other Populus species and hybrids

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Ptrichocarpa_444_v3.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

PoplarCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3190

Number of Compounds:

2380

Number of Enzymes:

13454

Number of Citations:

3930

SugarbeetCyc 3.0

Parent

Overview

Released:

Beta vulgaris subsp. vulgaris

Taxonomic Range:

Protein Sequence Source:

The Beta vulgaris Resource: BeetSet-2.genes.1408.pep

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SugarbeetCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3103

Number of Compounds:

2309

Number of Enzymes:

5718

Number of Citations:

3937

Boleracea_CapitataCyc 3.0

Parent

Overview

Released:

Brassica oleracea var. capitata

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Boleraceacapitata_446_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Boleracea_CapitataCyc

Content Statistics

Number of Pathways:

467

Number of Reactions:

2963

Number of Compounds:

2178

Number of Enzymes:

7598

Number of Citations:

3648

GinkgoCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Ginkgo biloba

Protein Sequence Source:

GIGA DB: Ginkgo_biloba.HiC.protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

GinkgoCyc

Content Statistics

Number of Pathways:

453

Number of Reactions:

2958

Number of Compounds:

2228

Number of Enzymes:

7884

Number of Citations:

3654

CgrandifloraCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Capsella grandiflora

Protein Sequence Source:

Phytozome v12: Cgrandiflora_266_v1.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CgrandifloraCyc

Content Statistics

Number of Pathways:

471

Number of Reactions:

2983

Number of Compounds:

2175

Number of Enzymes:

6121

Number of Citations:

3607

TeaCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Camellia sinensis

Protein Sequence Source:

Plant Kingdom DB: Teatree_Protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

TeaCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3069

Number of Compounds:

2307

Number of Enzymes:

8505

Number of Citations:

3884

EsalsugineumCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Eutrema salsugineum

Protein Sequence Source:

Phytozome v12: Esalsugineum_173_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

EsalsugineumCyc

Content Statistics

Number of Pathways:

477

Number of Reactions:

3014

Number of Compounds:

2196

Number of Enzymes:

6877

Number of Citations:

3642

MtruncatulaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Medicago truncatula

Protein Sequence Source:

NCBI Genome: GCF_000219495.3_MedtrA17_4.0_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MtruncatulaCyc

Content Statistics

Number of Pathways:

524

Number of Reactions:

3269

Number of Compounds:

2460

Number of Enzymes:

10909

Number of Citations:

4081

PotatoCyc 6.0

Parent

Overview

Released:

Taxonomic Range:

Solanum tuberosum

Protein Sequence Source:

Phytozome v12: Stuberosum_448_v4.03.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

PotatoCyc

Content Statistics

Number of Pathways:

521

Number of Reactions:

3272

Number of Compounds:

2497

Number of Enzymes:

11429

Number of Citations:

4209

SunflowerCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Helianthus annuus

Protein Sequence Source:

Phytozome v12: Hannuus_494_r1.2.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SunflowerCyc

Content Statistics

Number of Pathways:

497

Number of Reactions:

3134

Number of Compounds:

2330

Number of Enzymes:

11386

Number of Citations:

3879

Boleracea_OleraceaCyc 3.0

Parent

Overview

Released:

Brassica oleracea var. oleracea

Taxonomic Range:

Protein Sequence Source:

EnsemblPlants: Brassica_oleracea.BOL.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Boleracea_OleraceaCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

3136

Number of Compounds:

2295

Number of Enzymes:

12263

Number of Citations:

3689

LerCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Arabidopsis thaliana Ler

Protein Sequence Source:

NCBI: a_thaliana_thale_cress_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LerCyc

Content Statistics

Number of Pathways:

524

Number of Reactions:

3253

Number of Compounds:

2996

Number of Enzymes:

7073

Number of Citations:

8585

ChinesecabbageCyc 7.0

Parent

Overview

Released:

Brassica rapa ssp. pekinensis

Taxonomic Range:

Protein Sequence Source:

EnsemblPlants v34: Brassica_rapa.IVFCAASv1.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

ChinesecabbageCyc

Content Statistics

Number of Pathways:

478

Number of Reactions:

3027

Number of Compounds:

2188

Number of Enzymes:

9402

Number of Citations:

3708

ValleyoakCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Quercus lobata

Protein Sequence Source:

Valley Oak Genome Project: Qlob_aa.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

ValleyoakCyc

Content Statistics

Number of Pathways:

516

Number of Reactions:

3341

Number of Compounds:

2514

Number of Enzymes:

13100

Number of Citations:

4051

FlaxCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Linum usitatissimum

Protein Sequence Source:

Phytozome v12: Lusitatissimum_200_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

FlaxCyc

Content Statistics

Number of Pathways:

512

Number of Reactions:

3230

Number of Compounds:

2433

Number of Enzymes:

10589

Number of Citations:

4037

Ntabacum_Tn90Cyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Nicotiana tabacum TN90

Protein Sequence Source:

SGN: Nitab-v4.5_proteins_Edwards2017.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Ntabacum_Tn90Cyc

Content Statistics

Number of Pathways:

547

Number of Reactions:

3403

Number of Compounds:

2603

Number of Enzymes:

14176

Number of Citations:

4351

PpersicaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Prunus persica

Protein Sequence Source:

Phytozome v12: Ppersica_298_v2.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

PpersicaCyc

Content Statistics

Number of Pathways:

499

Number of Reactions:

3053

Number of Compounds:

2269

Number of Enzymes:

10923

Number of Citations:

3946

SviridisCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Setaria viridis

Protein Sequence Source:

Phytozome v12: Sviridis_500_v2.1.protein_primaryTranscriptOnly.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SviridisCyc

Content Statistics

Number of Pathways:

485

Number of Reactions:

3071

Number of Compounds:

2275

Number of Enzymes:

10539

Number of Citations:

3827

BrachypodiumCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Brachypodium distachyon

Protein Sequence Source:

Phytozome v12: Bdistachyon_314_v3.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

BrachypodiumCyc

Content Statistics

Number of Pathways:

479

Number of Reactions:

3051

Number of Compounds:

2278

Number of Enzymes:

10065

Number of Citations:

3823

LettuceCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Lactuca sativa

Protein Sequence Source:

Phytozome 12: Lsativa_467_v5.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LettuceCyc

Content Statistics

Number of Pathways:

502

Number of Reactions:

3161

Number of Compounds:

2356

Number of Enzymes:

14374

Number of Citations:

3850

ChlamyCyc 9.0

Parent

Overview

Released:

Chlamydomonas reinhardtii

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Creinhardtii_281_v5.5.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Primarily large-scale computational predictions of enzyme function not subject to curator review supplemented with data and references curated by the GoFORSYS project at the Max Planck Institute of Molecular Plant Physiology
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc and ChlamyCyc 1.0 (created by the GoFORSYS project at the Max Planck Institute of Molecular Plant Physiology) based on experimental evidence or curator inference

Link to PGDB:

ChlamyCyc

Content Statistics

Number of Pathways:

380

Number of Reactions:

2608

Number of Compounds:

1879

Number of Enzymes:

3367

Number of Citations:

4095

WatermelonCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Citrullus lanatus

Protein Sequence Source:

CuGenDB: WCG_protein_v2.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

WatermelonCyc

Content Statistics

Number of Pathways:

474

Number of Reactions:

2887

Number of Compounds:

2150

Number of Enzymes:

4916

Number of Citations:

3829

Fvesca_VescaCyc 3.0

Parent

Overview

Released:

Fragaria vesca subsp. Vesca

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Fvesca_501_v2.0.a2.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Fvesca_VescaCyc

Content Statistics

Number of Pathways:

494

Number of Reactions:

3055

Number of Compounds:

2257

Number of Enzymes:

10213

Number of Citations:

3926

ObrachyanthaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza brachyantha

Protein Sequence Source:

EnsemblPlants v34: Oryza_brachyantha.Oryza_brachyantha.v1.4b.pep.all.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

ObrachyanthaCyc

Content Statistics

Number of Pathways:

489

Number of Reactions:

3034

Number of Compounds:

2282

Number of Enzymes:

6227

Number of Citations:

3908

QuinoaCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Chenopodium quinoa

Protein Sequence Source:

Phytozome v12: Cquinoa_392_v1.0.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

QuinoaCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3141

Number of Compounds:

2359

Number of Enzymes:

10629

Number of Citations:

3933

SweetorangeCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Citrus sinensis

Protein Sequence Source:

Phytozome v12: Csinensis_154_v1.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SweetorangeCyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3144

Number of Compounds:

2345

Number of Enzymes:

11605

Number of Citations:

3943

Brapa_FpscCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Brassica rapa FPsc

Protein Sequence Source:

Phytozome v12: BrapaFPsc_277_v1.3.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Brapa_FpscCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

3047

Number of Compounds:

2220

Number of Enzymes:

9765

Number of Citations:

3710

MbalbisianaCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Musa balbisiana

Protein Sequence Source:

Banana Genome Hub: PKW_pep.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MbalbisianaCyc

Content Statistics

Number of Pathways:

475

Number of Reactions:

2877

Number of Compounds:

2139

Number of Enzymes:

7049

Number of Citations:

3812

ClementineCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Citrus clementina

Protein Sequence Source:

Phytozome v12: Cclementina_182_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

ClementineCyc

Content Statistics

Number of Pathways:

488

Number of Reactions:

3042

Number of Compounds:

2273

Number of Enzymes:

8423

Number of Citations:

3892

WildsugarcaneCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Saccharum spontanaeum

Protein Sequence Source:

The Ming Laboratory, University of Illinois: Sspon.v20190103.protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

WildsugarcaneCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3216

Number of Compounds:

2424

Number of Enzymes:

19681

Number of Citations:

3934

GraimondiiCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Gossypium raimondii

Protein Sequence Source:

Phytozome v12: Graimondii_221_v2.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

GraimondiiCyc

Content Statistics

Number of Pathways:

490

Number of Reactions:

3141

Number of Compounds:

2351

Number of Enzymes:

18197

Number of Citations:

3862

Oeuropaea_SylvestrisCyc 2.0

Parent

Overview

Released:

Olea europaea var. sylvestris

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Oeuropaea_451_v1.0.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

Oeuropaea_SylvestrisCyc

Content Statistics

Number of Pathways:

485

Number of Reactions:

3072

Number of Compounds:

2307

Number of Enzymes:

8643

Number of Citations:

3869

RchinensisCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Rosa chinensis

Protein Sequence Source:

INRA: OBDH_1.0_sequences_prot.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

RchinensisCyc

Content Statistics

Number of Pathways:

509

Number of Reactions:

3200

Number of Compounds:

2413

Number of Enzymes:

8938

Number of Citations:

4027

SwitchgrassCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Panicum virgatum

Protein Sequence Source:

Phytozome v12: Pvirgatum_516_v5.1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SwitchgrassCyc

Content Statistics

Number of Pathways:

506

Number of Reactions:

3240

Number of Compounds:

2425

Number of Enzymes:

25703

Number of Citations:

3967

BreadwheatCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Triticum aestivum

Protein Sequence Source:

EnsemblPlants: Triticum_aestivum.IWGSC.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

BreadwheatCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3271

Number of Compounds:

2474

Number of Enzymes:

30682

Number of Citations:

3975

MosobambooCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Phyllostachys edulis

Protein Sequence Source:

GIGA DB: Bamboo.Hic.pep.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MosobambooCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3108

Number of Compounds:

2340

Number of Enzymes:

12574

Number of Citations:

3845

CocoaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Theobroma cacao

Protein Sequence Source:

Phytozome v12: Tcacao_523_v2.1.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CocoaCyc

Content Statistics

Number of Pathways:

498

Number of Reactions:

3164

Number of Compounds:

2381

Number of Enzymes:

8866

Number of Citations:

4012

GrapeCyc 9.0

Parent

Overview

Released:

Taxonomic Range:

Vitis vinifera

Protein Sequence Source:

EnsemblPlants: Vitis_vinifera.12X.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

GrapeCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3149

Number of Compounds:

2391

Number of Enzymes:

7448

Number of Citations:

4035

OglaberrimaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza glaberrima

Protein Sequence Source:

EnsemblPlants v34: Oryza_glaberrima.Oryza_glaberrima_V1.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OglaberrimaCyc

Content Statistics

Number of Pathways:

494

Number of Reactions:

3042

Number of Compounds:

2289

Number of Enzymes:

6512

Number of Citations:

3902

RedcloverCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Trifolium pratense

Protein Sequence Source:

Phytozome v12: Tpratense_385_v2.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

RedcloverCyc

Content Statistics

Number of Pathways:

507

Number of Reactions:

3209

Number of Compounds:

2406

Number of Enzymes:

8860

Number of Citations:

3958

TomatoCyc 5.0

Parent

Overview

Released:

Taxonomic Range:

Solanum lycopersicum

Protein Sequence Source:

SGN: ITAG3.2_proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

TomatoCyc

Content Statistics

Number of Pathways:

540

Number of Reactions:

3319

Number of Compounds:

2516

Number of Enzymes:

7991

Number of Citations:

4411

BstrictaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Boechera stricta

Protein Sequence Source:

Phytozome v12: Bstricta_278_v1.2.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

BstrictaCyc

Content Statistics

Number of Pathways:

474

Number of Reactions:

3016

Number of Compounds:

2205

Number of Enzymes:

6506

Number of Citations:

3631

MuskmelonCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Cucumis melo

Protein Sequence Source:

Melonomics: CM4.0_protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MuskmelonCyc

Content Statistics

Number of Pathways:

483

Number of Reactions:

2979

Number of Compounds:

2184

Number of Enzymes:

5571

Number of Citations:

3854

CommonbeanCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Phaseolus vulgaris

Protein Sequence Source:

Phytozome v12: Pvulgaris_442_v2.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CommonbeanCyc

Content Statistics

Number of Pathways:

501

Number of Reactions:

3089

Number of Compounds:

2284

Number of Enzymes:

8708

Number of Citations:

3949

HopCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Humulus lupulus

Protein Sequence Source:

HopBase: humulus_lupulus_repeat_filter_pep.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

HopCyc

Content Statistics

Number of Pathways:

497

Number of Reactions:

3223

Number of Compounds:

2429

Number of Enzymes:

12073

Number of Citations:

3963

PlantCyc 14.0

Parent

Overview

Released:

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Number of Pathways:

1163

Number of Reactions:

5234

Number of Compounds:

4807

Number of Enzymes:

3769

Number of Citations:

14783

PlantCyc 11.0

Parent

Overview

Released:

June 2016

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

1213

Enzymes:

140581

Reactions:

6051

Compounds:

5128

Citations:

11114

PlantCyc 10.0

Parent

Overview

Released:

June 2015

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

1214

Enzymes:

152416

Reactions:

6200

Compounds:

5138

Citations:

10960

PlantCyc 9.5

Parent

Overview

Released:

November 2014

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

1119

Enzymes:

189957

Reactions:

5475

Compounds:

4539

Citations:

9476

PlantCyc 9.0

Parent

Overview

Released:

September 2014

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

1119

Enzymes:

189957

Reactions:

5475

Compounds:

4539

Citations:

9476

PlantCyc 8.0

Parent

Overview

Released:

November 2013

July 2013

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

1050

Enzymes:

188798

Reactions:

5332

Compounds:

4410

Citations:

7634

PlantCyc 7.0

Parent

Overview

Released:

June 2013

August 2012

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 300 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases, MetaCyc, LycoCyc, RiceCyc, or MedicCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases, MetaCyc, LycoCyc, RiceCyc, or MedicCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

NPP 3.0

UPP 3.0

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

978

Enzymes:

34663

Reactions:

3617

Compounds:

3455

Citations:

7634

PlantCyc 6.0

Parent

Overview

Released:

March 2012

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 300 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Protein Sequence Source:

Varies according to source: All enzymes have been imported from PMN databases, MetaCyc, LycoCyc, RiceCyc, or MedicCyc.

Enzyme Functional Annotation Method:

Varies according to source: All enzymes have been imported from PMN databases, MetaCyc, LycoCyc, RiceCyc, or MedicCyc.

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

All pathways have been manually imported from PMN databases or MetaCyc

SAVI pathway validation lists:

NPP 2.0

UPP 2.0

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Content Statistics

Pathways:

898

Enzymes:

27652

Reactions:

3421

Compounds:

3334

Citations:

6939

PlantCyc 5.0

Parent

Overview

Released:

April 2011

PlantCyc is a metabolic pathway reference database containing more than 800 pathways and their catalytic enzymes and genes, as well as compounds from over 300 plant species (See Database Statistics).

The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.

Taxonomic Range:

Link to PGDB:

Content Statistics

Pathways:

810

Enzymes:

11217

Reactions:

3167

Compounds:

3146

Citations:

5734

PlantCyc 4.0

Parent

Overview

Released:

June 2010

Taxonomic Range:

Link to PGDB:

Content Statistics

Pathways:

762

Enzymes:

11058

Reactions:

2929

Compounds:

2966

Citations:

5204

PlantCyc 3.0

Parent

Overview

Released:

October 2009

Taxonomic Range:

Link to PGDB:

Content Statistics

Pathways:

714

Enzymes:

10964

Reactions:

2709

Compounds:

2679

Citations:

4803

PlantCyc 2.0

Parent

Overview

Released:

March 2009

Taxonomic Range:

Link to PGDB:

Content Statistics

Pathways:

581

Enzymes:

8558

Reactions:

2501

Compounds:

2464

Citations:

4971

PlantCyc 1.0

Parent

Overview

Released:

June 2008

Taxonomic Range:

Link to PGDB:

Content Statistics

Pathways:

508

Enzymes:

3389

Reactions:

2277

Compounds:

2314

Citations:

4208

CsubellipsoideaCyc 3.0

Parent

Overview

Released:

Coccomyxa subellipsoidea C-169

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: CsubellipsoideaC_169_227_v2.0.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CsubellipsoideaCyc

Content Statistics

Number of Pathways:

312

Number of Reactions:

2256

Number of Compounds:

1648

Number of Enzymes:

2266

Number of Citations:

2889

LjaponicusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Lotus japonicus

Protein Sequence Source:

Kazusa Genome Database: Lj3.0_pep.fna

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LjaponicusCyc

Content Statistics

Number of Pathways:

506

Number of Reactions:

3234

Number of Compounds:

2426

Number of Enzymes:

9975

Number of Citations:

4022

OilpalmCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Elaeis guineensis

Protein Sequence Source:

Plaza 4.0: proteome.all_transcripts.egu.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OilpalmCyc

Content Statistics

Number of Pathways:

459

Number of Reactions:

2906

Number of Compounds:

2181

Number of Enzymes:

9243

Number of Citations:

3769

SunflowerCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Helianthus annuus

Protein Sequence Source:

Phytozome v12: Hannuus_494_r1.2.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SunflowerCyc

Content Statistics

Number of Pathways:

497

Number of Reactions:

3134

Number of Compounds:

2330

Number of Enzymes:

11386

Number of Citations:

3879

WildsugarcaneCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Saccharum spontanaeum

Protein Sequence Source:

The Ming Laboratory, University of Illinois: Sspon.v20190103.protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

WildsugarcaneCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3216

Number of Compounds:

2424

Number of Enzymes:

19681

Number of Citations:

3934

SorghumbicolorCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Sorghum bicolor

Protein Sequence Source:

Phytozome v12: Sbicolor_454_v3.1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

SorghumbicolorCyc

Content Statistics

Number of Pathways:

492

Number of Reactions:

3063

Number of Compounds:

2298

Number of Enzymes:

9924

Number of Citations:

3868

OrufipogonCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza rufipogon

Protein Sequence Source:

EnsemblPlants v34: Oryza_rufipogon.OR_W1943.pep.all.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OrufipogonCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3118

Number of Compounds:

2332

Number of Enzymes:

8833

Number of Citations:

3942

CucumberCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Cucumis sativus

Protein Sequence Source:

Phytozome v12: Csativus_122_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CucumberCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

2917

Number of Compounds:

2155

Number of Enzymes:

7317

Number of Citations:

3875

Boleracea_OleraceaCyc 3.0

Parent

Overview

Released:

Brassica oleracea var. oleracea

Taxonomic Range:

Protein Sequence Source:

EnsemblPlants: Brassica_oleracea.BOL.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Boleracea_OleraceaCyc

Content Statistics

Number of Pathways:

481

Number of Reactions:

3136

Number of Compounds:

2295

Number of Enzymes:

12263

Number of Citations:

3689

Carietinum_Icc4958Cyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Cicer arietinum ICC4958

Protein Sequence Source:

CSFL: Ca_Pep_v2.fasta.txt

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Carietinum_Icc4958Cyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3236

Number of Compounds:

2365

Number of Enzymes:

6633

Number of Citations:

3912

GinkgoCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Ginkgo biloba

Protein Sequence Source:

GIGA DB: Ginkgo_biloba.HiC.protein.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

GinkgoCyc

Content Statistics

Number of Pathways:

453

Number of Reactions:

2958

Number of Compounds:

2228

Number of Enzymes:

7884

Number of Citations:

3654

DrotundataCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Dioscorea rotundata

Protein Sequence Source:

EnsemblPlants v38: Dioscorea_rotundata.TDr96_F1_Pseudo_Chromosome_v1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

DrotundataCyc

Content Statistics

Number of Pathways:

450

Number of Reactions:

2816

Number of Compounds:

2125

Number of Enzymes:

4721

Number of Citations:

3616

SpiderflowerCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Tarenaya hassleriana

Protein Sequence Source:

NCBI: GCF_000463585.1_ASM46358v1_protein.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SpiderflowerCyc

Content Statistics

Number of Pathways:

472

Number of Reactions:

3017

Number of Compounds:

2212

Number of Enzymes:

9139

Number of Citations:

3623

TparvulaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Thellungiella parvula

Protein Sequence Source:

Thellungiella.org: TpV84ORFs.protein‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

TparvulaCyc

Content Statistics

Number of Pathways:

475

Number of Reactions:

3050

Number of Compounds:

2229

Number of Enzymes:

5908

Number of Citations:

3655

OpunctataCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Oryza punctata

Protein Sequence Source:

EnsemblPlants v34: Oryza_punctata.Oryza_punctata_v1.2.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

OpunctataCyc

Content Statistics

Number of Pathways:

484

Number of Reactions:

3022

Number of Compounds:

2273

Number of Enzymes:

8371

Number of Citations:

3888

FlaxCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Linum usitatissimum

Protein Sequence Source:

Phytozome v12: Lusitatissimum_200_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

FlaxCyc

Content Statistics

Number of Pathways:

512

Number of Reactions:

3230

Number of Compounds:

2433

Number of Enzymes:

10589

Number of Citations:

4037

BrachypodiumCyc 7.0

Parent

Overview

Released:

Taxonomic Range:

Brachypodium distachyon

Protein Sequence Source:

Phytozome v12: Bdistachyon_314_v3.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

BrachypodiumCyc

Content Statistics

Number of Pathways:

479

Number of Reactions:

3051

Number of Compounds:

2278

Number of Enzymes:

10065

Number of Citations:

3823

CroseusCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Catharanthus roseus

Protein Sequence Source:

Medicinal Plant Genomics Resource: cro_v2.proteins.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

CroseusCyc

Content Statistics

Number of Pathways:

500

Number of Reactions:

3069

Number of Compounds:

2301

Number of Enzymes:

5483

Number of Citations:

4004

RubbertreeCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Hevea brasiliensis

Protein Sequence Source:

Rubber Genome & Transcriptome Database: hevea_amino.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

RubbertreeCyc

Content Statistics

Number of Pathways:

516

Number of Reactions:

3334

Number of Compounds:

2528

Number of Enzymes:

9809

Number of Citations:

4036

CarnationCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Dianthus caryophyllus

Protein Sequence Source:

Kazusa Genome Database: DCA_r1.0_pep.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CarnationCyc

Content Statistics

Number of Pathways:

490

Number of Reactions:

3106

Number of Compounds:

2341

Number of Enzymes:

7514

Number of Citations:

3958

SweetorangeCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Citrus sinensis

Protein Sequence Source:

Phytozome v12: Csinensis_154_v1.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SweetorangeCyc

Content Statistics

Number of Pathways:

493

Number of Reactions:

3144

Number of Compounds:

2345

Number of Enzymes:

11605

Number of Citations:

3943

OryzaCyc 7.0

Parent

Overview

Released:

Oryza sativa japonica group

Taxonomic Range:

Protein Sequence Source:

EnsemblPlants: Oryza_sativa.IRGSP-1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

OryzaCyc

Content Statistics

Number of Pathways:

606

Number of Reactions:

3846

Number of Compounds:

2987

Number of Enzymes:

14682

Number of Citations:

5193

EgrandisCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Eucalyptus grandis

Protein Sequence Source:

Phytozome v12: Egrandis_297_v2.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

EgrandisCyc

Content Statistics

Number of Pathways:

506

Number of Reactions:

3136

Number of Compounds:

2357

Number of Enzymes:

11549

Number of Citations:

3964

Boleracea_CapitataCyc 3.0

Parent

Overview

Released:

Brassica oleracea var. capitata

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Boleraceacapitata_446_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

Boleracea_CapitataCyc

Content Statistics

Number of Pathways:

467

Number of Reactions:

2963

Number of Compounds:

2178

Number of Enzymes:

7598

Number of Citations:

3648

AraCyc 17.0

Parent

Overview

Released:

Taxonomic Range:

Arabidopsis thaliana col

Protein Sequence Source:

AraPort v11: Araport11_genes.201606.pep.repr.fasta

Enzyme Functional Annotation Method:

Enzyme Evidence:

Substantial manual curation of enzymes
In addition, large-scale computational predictions of enzyme function not subject to curator review

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

AraCyc

Content Statistics

Number of Pathways:

650

Number of Reactions:

3793

Number of Compounds:

3030

Number of Enzymes:

8556

Number of Citations:

7221

LettuceCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Lactuca sativa

Protein Sequence Source:

Phytozome 12: Lsativa_467_v5.protein.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

LettuceCyc

Content Statistics

Number of Pathways:

502

Number of Reactions:

3161

Number of Compounds:

2356

Number of Enzymes:

14374

Number of Citations:

3850

CcapsularisCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Corchorus capsularis

Protein Sequence Source:

EnsemblPlants v38: Corchorus_capsularis.CCACVL1_1.0.pep.all.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

CcapsularisCyc

Content Statistics

Number of Pathways:

482

Number of Reactions:

2966

Number of Compounds:

2177

Number of Enzymes:

5217

Number of Citations:

3840

SugarbeetCyc 3.0

Parent

Overview

Released:

Beta vulgaris subsp. vulgaris

Taxonomic Range:

Protein Sequence Source:

The Beta vulgaris Resource: BeetSet-2.genes.1408.pep

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

SugarbeetCyc

Content Statistics

Number of Pathways:

496

Number of Reactions:

3103

Number of Compounds:

2309

Number of Enzymes:

5718

Number of Citations:

3937

PpersicaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Prunus persica

Protein Sequence Source:

Phytozome v12: Ppersica_298_v2.1.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

PpersicaCyc

Content Statistics

Number of Pathways:

499

Number of Reactions:

3053

Number of Compounds:

2269

Number of Enzymes:

10923

Number of Citations:

3946

EsalsugineumCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Eutrema salsugineum

Protein Sequence Source:

Phytozome v12: Esalsugineum_173_v1.0.protein.fa‚Äã

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

EsalsugineumCyc

Content Statistics

Number of Pathways:

477

Number of Reactions:

3014

Number of Compounds:

2196

Number of Enzymes:

6877

Number of Citations:

3642

BananaCyc 3.0

Parent

Overview

Released:

Taxonomic Range:

Musa acuminata

Protein Sequence Source:

Banana Genome Hub: musa_acuminata_v2_prot.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

BananaCyc

Content Statistics

Number of Pathways:

480

Number of Reactions:

3027

Number of Compounds:

2268

Number of Enzymes:

9952

Number of Citations:

3856

KfedtschenkoiCyc 2.0

Parent

Overview

Released:

Taxonomic Range:

Kalanchoe fedtschenkoi

Protein Sequence Source:

Phytozome v12: Kfedtschenkoi_382_v1.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Primarily computational prediction of pathways followed by SAVI refinement and curator review
Additional pathways imported from MetaCyc based on experimental evidence or curator inference

Link to PGDB:

KfedtschenkoiCyc

Content Statistics

Number of Pathways:

482

Number of Reactions:

3061

Number of Compounds:

2294

Number of Enzymes:

10385

Number of Citations:

3814

MbalbisianaCyc 1.0

Parent

Overview

Released:

Taxonomic Range:

Musa balbisiana

Protein Sequence Source:

Banana Genome Hub: PKW_pep.faa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists:

Pathway Evidence:

Substantial manual curation of pathways
Some computational prediction of pathways followed by curator review
Additional pathways imported from MetaCyc based on curator inference

Link to PGDB:

MbalbisianaCyc

Content Statistics

Number of Pathways:

475

Number of Reactions:

2877

Number of Compounds:

2139

Number of Enzymes:

7049

Number of Citations:

3812

CzofingiensisCyc 2.0

Parent

Overview

Released:

Chromochloris zofingiensis

Taxonomic Range:

Protein Sequence Source:

Phytozome v12: Czofingiensis_461_v5.2.3.2.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method:

Enzyme Evidence:

Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
Small number of manually curated enzymes

Pathway Prediction Program:

Pathway Tools 23.0

SAVI pathway validation lists: