Reviewed, UniProtKB/Swiss-Prot Q0J8A4 (G3PC_ORYSJ)

Names and origin

Protein names

Recommended name:
    Glyceraldehyde-3-phosphate dehydrogenase, cytosolic
    EC=1.2.1.12
Alternative name(s):
    PP38

Gene names

Name:	GAPC
Synonyms:	GPC
Ordered Locus Names:	Os08g0126300, LOC_Os08g03290
ORF Names:	OJ1163_G08.15, OsJ_024858

Organism

Oryza sativa subsp. japonica (Rice)

Taxonomic identifier

39947 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › Liliopsida › Poales › Poaceae › BEP clade › Ehrhartoideae › Oryzeae › Oryza

Protein attributes

Sequence length	337 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Catalytic activity	D-glyceraldehyde 3-phosphate + phosphate + NAD+ = 3-phospho-D-glyceroyl phosphate + NADH.
Pathway	Carbohydrate degradation; glycolysis; pyruvate from D-glyceraldehyde 3-phosphate: step 1/5.
Subunit structure	Homotetramer.
Subcellular location	Cytoplasm.
Induction	By gibberellin. Ref.6
Post-translational modification	Phosphorylated after gibberellin treatment. Ref.6
Miscellaneous	Plants contain three forms of GAPDH: a cytosolic form which participates in glycolysis and two chloroplast forms which participates in photosynthesis. These three forms are encoded by distinct genes.
Sequence similarities	Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.

Ontologies

Keywords
Biological process	Glycolysis
Cellular component	Cytoplasm
Ligand	NAD
Molecular function	Oxidoreductase
Technical term	3D-structure Direct protein sequencing
Gene Ontology (GO)
Biological process	glycolysis Inferred from electronic annotation. Source: UniProtKB-KW oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	NAD or NADH binding Inferred from electronic annotation. Source: InterPro glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

1

1

Removed Ref.5

Chain

2 – 337

336

Glyceraldehyde-3-phosphate dehydrogenase, cytosolic

PRO_0000145609

Regions

Nucleotide binding

13 – 14

2

NAD By similarity

Region

153 – 155

3

Glyceraldehyde 3-phosphate binding By similarity

Region

213 – 214

2

Glyceraldehyde 3-phosphate binding By similarity

Sites

Active site

154

1

Nucleophile By similarity

Binding site

35

1

NAD By similarity

Binding site

82

1

NAD; via carbonyl oxygen By similarity

Binding site

184

1

Glyceraldehyde 3-phosphate By similarity

Binding site

236

1

Glyceraldehyde 3-phosphate By similarity

Binding site

318

1

NAD By similarity

Site

181

1

Activates thiol group during catalysis By similarity

Secondary structure

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337

Helix Strand Turn

Details...

Beta strand

4 – 6

3

Helix

17 – 24

8

Beta strand

26 – 30

5

Beta strand

32 – 34

3

Helix

40 – 48

9

Beta strand

62 – 70

9

Beta strand

75 – 79

5

Helix

84 – 86

3

Helix

89 – 91

3

Beta strand

96 – 99

4

Helix

107 – 110

4

Helix

111 – 114

4

Beta strand

120 – 125

6

Beta strand

128 – 130

3

Helix

139 – 141

3

Beta strand

148 – 150

3

Helix

154 – 169

16

Beta strand

172 – 174

3

Beta strand

176 – 181

6

Beta strand

187 – 189

3

Helix

204 – 206

3

Beta strand

209 – 211

3

Turn

216 – 218

3

Helix

224 – 226

3

Beta strand

234 – 236

3

Beta strand

243 – 253

11

Helix

257 – 268

12

Helix

285 – 288

4

Beta strand

296 – 298

3

Beta strand

304 – 306

3

Beta strand

309 – 316

8

Helix

323 – 334

12

Sequences

	Sequence		Length	Mass (Da)
	Q0J8A4-1 [UniParc]. Last modified October 3, 2006. Version 1. Checksum: 3A8154CF7A06A603	FASTA	337	36,413
	10 20 30 40 50 60 MGKIKIGING FGRIGRLVAR VALQSEDVEL VAVNDPFITT DYMTYMFKYD TVHGQWKHSD 70 80 90 100 110 120 IKIKDSKTLL LGEKPVTVFG IRNPDEIPWA EAGAEYVVES TGVFTDKEKA AAHLKGGAKK 130 140 150 160 170 180 VVISAPSKDA PMFVCGVNED KYTSDIDIVS NASCTTNCLA PLAKVIHDNF GIIEGLMTTV 190 200 210 220 230 240 HAITATQKTV DGPSSKDWRG GRAASFNIIP SSTGAAKAVG KVLPDLNGKL TGMSFRVPTV 250 260 270 280 290 300 DVSVVDLTVR IEKAASYDAI KSAIKSASEG KLKGIIGYVE EDLVSTDFVG DSRSSIFDAK 310 320 330 AGIALNDNFV KLVAWYDNEW GYSNRVIDLI RHMAKTQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning of glyceraldehyde-3-phosphate dehydrogenase genes in rice seeds." Yoon U.H., Kim Y.H. Submitted (NOV-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: cv. Ilpoombyeo. Tissue: Seed.
[2]	"The map-based sequence of the rice genome." International rice genome sequencing project (IRGSP) Nature 436:793-800(2005) [PubMed: 16100779] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[3]	"Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana." The rice annotation project (RAP) Genome Res. 17:175-183(2007) [PubMed: 17210932] [Abstract] Cited for: GENOME REANNOTATION. Strain: cv. Nipponbare.
[4]	"The genomes of Oryza sativa: a history of duplications." Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L. , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H. PLoS Biol. 3:266-281(2005) [PubMed: 15685292] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[5]	"Rice proteome database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003." Komatsu S., Kojima K., Suzuki K., Ozaki K., Higo K. Nucleic Acids Res. 32:D388-D392(2004) [PubMed: 14681440] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-11; 30-39 AND 140-149. Strain: cv. Nipponbare. Tissue: Anther, Callus, Embryo, Panicle and Stem.
[6]	"Identification of phosphoproteins regulated by gibberellin in rice leaf sheath." Khan M.M.K., Jan A., Karibe H., Komatsu S. Plant Mol. Biol. 58:27-40(2005) [PubMed: 16028114] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, INDUCTION, PHOSPHORYLATION. Strain: cv. Nipponbare.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

EF122472 mRNA. Translation: ABL74559.1.
AP003886 Genomic DNA. Translation: BAD08850.1.
AP008214 Genomic DNA. Translation: BAF22811.1.
CM000145 Genomic DNA. Translation: EAZ41375.1.

RefSeq

NP_001060897.1.

UniGene

Os.12168

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3E5R	X-ray	2.30	A/B/C/O	1-337	[»]
3E6A	X-ray	3.77	A/B/C/O	2-337	[»]

ModBase

Search...

Genome annotation databases

GeneID

4344564.

GenomeReviews

Gene locus GAPC in contig AP008214_GR.

KEGG

osa:4344564.

Organism-specific databases

Gramene

Q42977.

Phylogenomic databases

HOGENOM

HBG571736.

PhylomeDB

Q0J8A4.

Family and domain databases

InterPro

IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020832. GlycerAld_3-P_DH_cat_sub.
IPR020831. GlycerAld_3-P_DH_family.
IPR020828. GlycerAld_3-P_DH_NAD(P)_bd.
IPR000173. GlycerAld_3-P_DH_subfam.
IPR006424. Glyceraldehyde-3-P_DH_1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]

PANTHER

PTHR10836. GAP_DH. 1 hit.

Pfam

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

PIRSF

PIRSF000149. GAP_DH. 1 hit.

PRINTS

PR00078. G3PDHDRGNASE.

SMART

SM00846. Gp_dh_N. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01534. GAPDH-I. 1 hit.

PROSITE

PS00071. GAPDH. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

G3PC_ORYSJ

Accession

Primary (citable) accession number: Q0J8A4
Secondary accession number(s): Q42977, Q6ZK60

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 10, 2007
Last sequence update:	October 3, 2006
Last modified:	February 9, 2010
This is version 31 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)