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Protein

Glyceraldehyde-3-phosphate dehydrogenase

Gene

gap

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

D-glyceraldehyde 3-phosphate + phosphate + NAD(P)+ = 3-phospho-D-glyceroyl phosphate + NAD(P)H.

Pathwayi: glycolysis

This protein is involved in step 1 of the subpathway that synthesizes pyruvate from D-glyceraldehyde 3-phosphate.
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. Glyceraldehyde-3-phosphate dehydrogenase (gap)
  2. Phosphoglycerate kinase (pgk)
  3. 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (apgM)
  4. Enolase (eno)
  5. Pyruvate kinase (PH0570)
This subpathway is part of the pathway glycolysis, which is itself part of Carbohydrate degradation.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes pyruvate from D-glyceraldehyde 3-phosphate, the pathway glycolysis and in Carbohydrate degradation.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei111NAD; via amide nitrogen1 Publication1
Active sitei141NucleophileBy similarity1
Binding sitei167NAD1 Publication1
Binding sitei298NAD; via carbonyl oxygen1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi12 – 13NAD1 Publication2

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glycolysis

Keywords - Ligandi

NAD, NADP

Enzyme and pathway databases

UniPathwayiUPA00109; UER00184.

Names & Taxonomyi

Protein namesi
Recommended name:
Glyceraldehyde-3-phosphate dehydrogenase (EC:1.2.1.59)
Short name:
GAPDH
Alternative name(s):
NAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase
Gene namesi
Name:gap
Ordered Locus Names:PH1830
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001457311 – 334Glyceraldehyde-3-phosphate dehydrogenaseAdd BLAST334

Interactioni

Subunit structurei

Homotetramer.1 Publication

Protein-protein interaction databases

STRINGi70601.PH1830.

Structurei

Secondary structure

1334
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 8Combined sources6
Helixi12 – 22Combined sources11
Beta strandi27 – 36Combined sources10
Helixi39 – 46Combined sources8
Beta strandi51 – 55Combined sources5
Helixi56 – 58Combined sources3
Helixi59 – 65Combined sources7
Helixi73 – 77Combined sources5
Beta strandi81 – 85Combined sources5
Helixi91 – 102Combined sources12
Beta strandi105 – 108Combined sources4
Helixi114 – 116Combined sources3
Beta strandi117 – 121Combined sources5
Helixi123 – 126Combined sources4
Helixi127 – 130Combined sources4
Beta strandi134 – 138Combined sources5
Helixi141 – 153Combined sources13
Helixi154 – 156Combined sources3
Beta strandi157 – 169Combined sources13
Beta strandi187 – 189Combined sources3
Helixi192 – 196Combined sources5
Turni197 – 199Combined sources3
Beta strandi204 – 212Combined sources9
Beta strandi217 – 227Combined sources11
Helixi231 – 239Combined sources9
Beta strandi244 – 247Combined sources4
Helixi249 – 251Combined sources3
Helixi256 – 265Combined sources10
Helixi269 – 271Combined sources3
Beta strandi275 – 279Combined sources5
Helixi280 – 282Combined sources3
Beta strandi284 – 286Combined sources3
Beta strandi289 – 296Combined sources8
Turni298 – 302Combined sources5
Helixi303 – 313Combined sources11
Helixi319 – 330Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CZCX-ray2.00A/B/C/D1-334[»]
ProteinModelPortaliO59494.
SMRiO59494.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO59494.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni140 – 142Glyceraldehyde 3-phosphate bindingBy similarity3
Regioni192 – 193Glyceraldehyde 3-phosphate bindingBy similarity2

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG00493. Archaea.
COG0057. LUCA.
HOGENOMiHOG000223361.
KOiK00150.
OMAiVTVPSHH.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00559. G3P_dehdrog_arch. 1 hit.
InterProiIPR000846. DapB_N.
IPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006436. Glyceraldehyde-3-P_DH_2_arc.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF01113. DapB_N. 1 hit.
PF02800. Gp_dh_C. 1 hit.
[Graphical view]
PIRSFiPIRSF000149. GAP_DH. 1 hit.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01546. GAPDH-II_archae. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O59494-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVKVGVNGY GTIGKRVAYA VTKQDDMELI GITKTKPDFE AYRAKELGIP
60 70 80 90 100
VYAASEEFIP RFEKEGFEVA GTLNDLLEKV DIIVDATPGG IGAKNKPLYE
110 120 130 140 150
KAGVKAIFQG GEKADVAEVS FVAQANYEAA LGKNYVRVVS CNTTGLVRTL
160 170 180 190 200
SAIREYADYV YAVMIRRAAD PNDTKRGPIN AIKPTVEVPS HHGPDVQTVI
210 220 230 240 250
PINIETMAFV VPTTLMHVHS VMVELKKPLT KDDVIDIFEN TTRVLLFEKE
260 270 280 290 300
KGFDSTAQII EFARDLHREW NNLYEIAVWK ESINIKGNRL FYIQAVHQES
310 320 330
DVIPENIDAI RAMFELADKW DSIKKTNKSL GILK
Length:334
Mass (Da):37,264
Last modified:August 1, 1998 - v1
Checksum:iAEA615734718E39B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA30950.1.
PIRiG71194.
RefSeqiWP_010885890.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA30950; BAA30950; BAA30950.
GeneIDi1442672.
KEGGipho:PH1830.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA30950.1.
PIRiG71194.
RefSeqiWP_010885890.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CZCX-ray2.00A/B/C/D1-334[»]
ProteinModelPortaliO59494.
SMRiO59494.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH1830.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA30950; BAA30950; BAA30950.
GeneIDi1442672.
KEGGipho:PH1830.

Phylogenomic databases

eggNOGiarCOG00493. Archaea.
COG0057. LUCA.
HOGENOMiHOG000223361.
KOiK00150.
OMAiVTVPSHH.

Enzyme and pathway databases

UniPathwayiUPA00109; UER00184.

Miscellaneous databases

EvolutionaryTraceiO59494.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00559. G3P_dehdrog_arch. 1 hit.
InterProiIPR000846. DapB_N.
IPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006436. Glyceraldehyde-3-P_DH_2_arc.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF01113. DapB_N. 1 hit.
PF02800. Gp_dh_C. 1 hit.
[Graphical view]
PIRSFiPIRSF000149. GAP_DH. 1 hit.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01546. GAPDH-II_archae. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiG3P_PYRHO
AccessioniPrimary (citable) accession number: O59494
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: August 1, 1998
Last modified: November 2, 2016
This is version 114 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.