Q58546 (G3P_METJA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Glyceraldehyde-3-phosphate dehydrogenase
Short name=GAPDH
EC=1.2.1.59

Alternative name(s):
NAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase

Gene names

Name:	gap
Ordered Locus Names:	MJ1146

Organism

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) [Reference proteome] [HAMAP]

Taxonomic identifier

243232 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus › Methanocaldococcus jannaschii

Protein attributes

Sequence length	343 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Catalytic activity	D-glyceraldehyde 3-phosphate + phosphate + NAD(P)+ = 3-phospho-D-glyceroyl phosphate + NAD(P)H. HAMAP-Rule MF_00559
Pathway	Carbohydrate degradation; glycolysis; pyruvate from D-glyceraldehyde 3-phosphate: step 1/5. HAMAP-Rule MF_00559
Subunit structure	Homotetramer By similarity.
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.

Ontologies

Keywords
Biological process	Glycolysis
Cellular component	Cytoplasm
Ligand	NAD NADP
Molecular function	Oxidoreductase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	glycolysis Inferred from electronic annotation. Source: HAMAP
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	NAD binding Inferred from electronic annotation. Source: InterPro NADP binding Inferred from electronic annotation. Source: InterPro glyceraldehyde-3-phosphate dehydrogenase (NAD(P)+) (phosphorylating) activity Inferred from electronic annotation. Source: EC glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 343

343

Glyceraldehyde-3-phosphate dehydrogenase HAMAP-Rule MF_00559

PRO_0000145723

Regions

Nucleotide binding

12 – 13

2

NAD By similarity

Region

143 – 145

3

Glyceraldehyde 3-phosphate binding By similarity

Region

198 – 199

2

Glyceraldehyde 3-phosphate binding By similarity

Sites

Active site

144

1

Nucleophile By similarity

Binding site

114

1

NAD; via amide nitrogen By similarity

Binding site

172

1

NAD By similarity

Binding site

307

1

NAD; via carbonyl oxygen By similarity

Secondary structure

1

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343

Helix Strand Turn

Details...

Beta strand

3 – 8

6

Helix

12 – 23

12

Beta strand

24 – 36

13

Helix

39 – 46

8

Beta strand

51 – 55

5

Helix

58 – 66

9

Helix

75 – 77

3

Helix

79 – 81

3

Beta strand

83 – 87

5

Helix

93 – 100

8

Turn

101 – 106

6

Beta strand

108 – 111

4

Helix

117 – 119

3

Beta strand

120 – 124

5

Turn

126 – 128

3

Helix

130 – 133

4

Beta strand

137 – 141

5

Helix

144 – 157

14

Beta strand

160 – 174

15

Beta strand

188 – 195

8

Helix

198 – 205

8

Helix

207 – 209

3

Beta strand

212 – 221

10

Beta strand

226 – 236

11

Helix

240 – 249

10

Beta strand

253 – 256

4

Helix

258 – 260

3

Helix

265 – 275

11

Helix

278 – 280

3

Beta strand

284 – 288

5

Helix

289 – 291

3

Beta strand

293 – 295

3

Beta strand

298 – 305

8

Turn

307 – 311

5

Helix

312 – 322

11

Helix

329 – 340

12

Sequences

	Sequence		Length	Mass (Da)
	Q58546 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 81EB5810A9C838C5	FASTA	343	38,102
	10 20 30 40 50 60 MPAKVLINGY GSIGKRVADA VSMQDDMEVI GVTKTKPDFE ARLAVEKGYK LFVAIPDNER 70 80 90 100 110 120 VKLFEDAGIP VEGTILDIIE DADIVVDGAP KKIGKQNLEN IYKPHKVKAI LQGGEKAKDV 130 140 150 160 170 180 EDNFNALWSY NRCYGKDYVR VVSCNTTGLC RILYAINSIA DIKKARIVLV RRAADPNDDK 190 200 210 220 230 240 TGPVNAITPN PVTVPSHHGP DVVSVVPEFE GKILTSAVIV PTTLMHMHTL MVEVDGDVSR 250 260 270 280 290 300 DDILEAIKKT PRIITVRAED GFSSTAKIIE YGRDLGRLRY DINELVVWEE SINVLENEIF 310 320 330 340 LMQAVHQESI VIPENIDCIR AMLQMEEDNF KSIEKTNKAM GIQ

References

[1]

"Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii." Bult C.J., White O., Olsen G.J., Zhou L., Fleischmann R.D., Sutton G.G., Blake J.A., FitzGerald L.M., Clayton R.A., Gocayne J.D., Kerlavage A.R., Dougherty B.A., Tomb J.-F., Adams M.D., Reich C.I., Overbeek R., Kirkness E.F., Weinstock K.G. , Merrick J.M., Glodek A., Scott J.L., Geoghagen N.S.M., Weidman J.F., Fuhrmann J.L., Nguyen D., Utterback T.R., Kelley J.M., Peterson J.D., Sadow P.W., Hanna M.C., Cotton M.D., Roberts K.M., Hurst M.A., Kaine B.P., Borodovsky M., Klenk H.-P., Fraser C.M., Smith H.O., Woese C.R., Venter J.C. Science 273:1058-1073(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

+

Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

L77117 Genomic DNA. Translation: AAB99147.1.

PIR

A64443.

RefSeq

NP_248138.1. NC_000909.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2YYY	X-ray	1.85	A/B	1-343	[»]

ProteinModelPortal

Q58546.

SMR

Q58546. Positions 2-343.

ModBase

Search...

Protein-protein interaction databases

STRING

243232.MJ1146.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAB99147; AAB99147; MJ_1146.

GeneID

1452042.

KEGG

mja:MJ_1146.

Phylogenomic databases

eggNOG

COG0057.

KO

K00150.

OMA

VPSHHGP.

ProtClustDB

PRK04207.

Enzyme and pathway databases

UniPathway

UPA00109; UER00184.

Family and domain databases

Gene3D

3.40.50.720. 1 hit.

HAMAP

MF_00559. G3P_dehdrog_arch.

InterPro

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]

Pfam

PF02800. Gp_dh_C. 1 hit.
PF00044. Gp_dh_N. 1 hit.
[Graphical view]

PIRSF

PIRSF000149. GAP_DH. 1 hit.

SMART

SM00846. Gp_dh_N. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01546. GAPDH-II_archae. 1 hit.

PROSITE

PS00071. GAPDH. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

Q58546.

Entry information

Entry name

G3P_METJA

Accession

Primary (citable) accession number: Q58546

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 96 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program