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Protein

Glyceraldehyde-3-phosphate dehydrogenase

Gene

gapA

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the oxidative phosphorylation of glyceraldehyde 3-phosphate (G3P) to 1,3-bisphosphoglycerate (BPG) using the cofactor NAD. The first reaction step involves the formation of a hemiacetal intermediate between G3P and a cysteine residue, and this hemiacetal intermediate is then oxidized to a thioester, with concomitant reduction of NAD to NADH. The reduced NADH is then exchanged with the second NAD, and the thioester is attacked by a nucleophilic inorganic phosphate to produce BPG.By similarity

Catalytic activityi

D-glyceraldehyde 3-phosphate + phosphate + NAD+ = 3-phospho-D-glyceroyl phosphate + NADH.By similarity

Pathwayi: glycolysis

This protein is involved in step 1 of the subpathway that synthesizes pyruvate from D-glyceraldehyde 3-phosphate.Curated
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. Glyceraldehyde-3-phosphate dehydrogenase (gapA)
  2. Phosphoglycerate kinase (pgk)
  3. 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (gpmA)
  4. Enolase (eno)
  5. Pyruvate kinase (pyk), Pyruvate kinase (pyk)
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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei40 – 401NADBy similarity
Binding sitei85 – 851NAD; via carbonyl oxygenBy similarity
Binding sitei128 – 1281NADBy similarity
Active sitei159 – 1591NucleophileBy similarity
Sitei186 – 1861Activates thiol group during catalysisBy similarity
Binding sitei189 – 1891Glyceraldehyde 3-phosphateBy similarity
Binding sitei204 – 2041Glyceraldehyde 3-phosphateBy similarity
Binding sitei240 – 2401Glyceraldehyde 3-phosphateBy similarity
Binding sitei321 – 3211NADBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi12 – 132NADBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Glycolysis

Keywords - Ligandi

NAD, Nucleotide-binding

Enzyme and pathway databases

BioCyciMSME246196:GJ4Y-3084-MONOMER.
UniPathwayiUPA00109; UER00184.

Names & Taxonomyi

Protein namesi
Recommended name:
Glyceraldehyde-3-phosphate dehydrogenaseBy similarity (EC:1.2.1.12By similarity)
Short name:
GAPDHBy similarity
Alternative name(s):
NAD-dependent glyceraldehyde-3-phosphate dehydrogenaseBy similarity
Gene namesi
Name:gapA
Synonyms:gap
Ordered Locus Names:MSMEG_3084, MSMEI_3006
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000006158 Componenti: Chromosome
  • UP000000757 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 340340Glyceraldehyde-3-phosphate dehydrogenasePRO_0000396820Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Cross-linki257 – 257Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-Cter in protein Pup)1 Publication

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Proteomic databases

PRIDEiA0QWW2.

Interactioni

Subunit structurei

Homotetramer.By similarity

Protein-protein interaction databases

STRINGi246196.MSMEG_3084.

Structurei

3D structure databases

ProteinModelPortaliA0QWW2.
SMRiA0QWW2. Positions 3-337.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni158 – 1603Glyceraldehyde 3-phosphate bindingBy similarity
Regioni217 – 2182Glyceraldehyde 3-phosphate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105C17. Bacteria.
COG0057. LUCA.
HOGENOMiHOG000071679.
KOiK00134.
OMAiFVRVLSW.
OrthoDBiEOG66TG3S.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006424. Glyceraldehyde-3-P_DH_1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR10836. PTHR10836. 1 hit.
PfamiPF02800. Gp_dh_C. 1 hit.
PF00044. Gp_dh_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000149. GAP_DH. 1 hit.
PRINTSiPR00078. G3PDHDRGNASE.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A0QWW2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTIRVGVNGF GRIGRNFYRA LATQKAEGKN TDIEIVAVND LTDNATLAHL
60 70 80 90 100
LKFDSILGRL PQDVSLEGDD TIVIGDTKIK ALEVKEGPAA LPWGDLGVDV
110 120 130 140 150
VVESTGIFTN AAKAKGHLDA GAKKVIISAP ATDEDITIVL GVNDDKYDGS
160 170 180 190 200
QNIISNASCT TNCLGPLAKV LNDEFGIVKG LMTTIHAYTQ DQNLQDGPHK
210 220 230 240 250
DLRRARAAAL NIVPTSTGAA KAIGLVLPEL KGKLDGYALR VPIPTGSVTD
260 270 280 290 300
LTAELAKSAS VEDINAAMKA AAEGPLKGIL KYYDAPIVSS DIVTDPHSSL
310 320 330 340
YDAGLTKVID NQAKVVSWYD NEWGYSNRLA DLVALVGKSL
Length:340
Mass (Da):35,948
Last modified:January 9, 2007 - v1
Checksum:i685BC620FF962AFA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK69982.1.
CP001663 Genomic DNA. Translation: AFP39470.1.
RefSeqiWP_003894472.1. NZ_CP009494.1.
YP_887400.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK69982; ABK69982; MSMEG_3084.
AFP39470; AFP39470; MSMEI_3006.
GeneIDi4535975.
KEGGimsb:LJ00_15345.
msg:MSMEI_3006.
msm:MSMEG_3084.
PATRICi18078594. VBIMycSme59918_3045.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK69982.1.
CP001663 Genomic DNA. Translation: AFP39470.1.
RefSeqiWP_003894472.1. NZ_CP009494.1.
YP_887400.1. NC_008596.1.

3D structure databases

ProteinModelPortaliA0QWW2.
SMRiA0QWW2. Positions 3-337.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi246196.MSMEG_3084.

Proteomic databases

PRIDEiA0QWW2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK69982; ABK69982; MSMEG_3084.
AFP39470; AFP39470; MSMEI_3006.
GeneIDi4535975.
KEGGimsb:LJ00_15345.
msg:MSMEI_3006.
msm:MSMEG_3084.
PATRICi18078594. VBIMycSme59918_3045.

Phylogenomic databases

eggNOGiENOG4105C17. Bacteria.
COG0057. LUCA.
HOGENOMiHOG000071679.
KOiK00134.
OMAiFVRVLSW.
OrthoDBiEOG66TG3S.

Enzyme and pathway databases

UniPathwayiUPA00109; UER00184.
BioCyciMSME246196:GJ4Y-3084-MONOMER.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006424. Glyceraldehyde-3-P_DH_1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR10836. PTHR10836. 1 hit.
PfamiPF02800. Gp_dh_C. 1 hit.
PF00044. Gp_dh_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000149. GAP_DH. 1 hit.
PRINTSiPR00078. G3PDHDRGNASE.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M.
    Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  2. "Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?"
    Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M.
    Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  3. "Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol."
    Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O.
    Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  4. Cited for: PUPYLATION AT LYS-257, IDENTIFICATION BY MASS SPECTROMETRY.

Entry informationi

Entry nameiG3P_MYCS2
AccessioniPrimary (citable) accession number: A0QWW2
Secondary accession number(s): I7FD88
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: January 9, 2007
Last modified: December 9, 2015
This is version 71 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

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.