O29390 (GPDA_ARCFU) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Glycerol-3-phosphate dehydrogenase [NAD(P)+]
EC=1.1.1.94

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

Gene names

Name:	gpsA
Ordered Locus Names:	AF_0871

Organism

Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)

Taxonomic identifier

224325 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Archaeoglobi › Archaeoglobales › Archaeoglobaceae › Archaeoglobus

Protein attributes

Sequence length	335 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Catalytic activity	sn-glycerol 3-phosphate + NAD(P)+ = glycerone phosphate + NAD(P)H. HAMAP MF_00394
Pathway	Membrane lipid metabolism; glycerophospholipid metabolism. HAMAP MF_00394
Subunit structure	Homodimer. Ref.2
Subcellular location	Cytoplasm Probable HAMAP MF_00394.
Miscellaneous	Has a strong preference for NADP over NAD. HAMAP MF_00394
Sequence similarities	Belongs to the NAD-dependent glycerol-3-phosphate dehydrogenase family.
Biophysicochemical properties	Kinetic parameters: KM=40 µM for NADPH Ref.2 KM=1 mM for dihydroxyacetone phosphate Vmax=44 µmol/min/mg enzyme Temperature dependence: Optimum temperature is 70 degrees Celsius.

Ontologies

Keywords
Biological process	Phospholipid biosynthesis
Cellular component	Cytoplasm
Ligand	NADP
Molecular function	Oxidoreductase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	glycerol-3-phosphate catabolic process Inferred from electronic annotation. Source: InterPro phospholipid biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	glycerol-3-phosphate dehydrogenase complex Inferred from electronic annotation. Source: InterPro
Molecular function	NAD binding Inferred from electronic annotation. Source: InterPro glycerol-3-phosphate dehydrogenase [NAD(P)+] activity Inferred from electronic annotation. Source: EC glycerol-3-phosphate dehydrogenase [NAD+] activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 335

335

Glycerol-3-phosphate dehydrogenase [NAD(P)+] HAMAP MF_00394

PRO_0000138068

Regions

Nucleotide binding

7 – 12

6

NADP By similarity

Region

259 – 260

2

Substrate binding By similarity

Sites

Active site

192

1

Proton acceptor Potential

Binding site

33

1

NADP By similarity

Binding site

49

1

NADP Probable

Binding site

105

1

Substrate By similarity

Binding site

141

1

NADP; via amide nitrogen By similarity

Binding site

259

1

NADP By similarity

Binding site

289

1

NADP By similarity

Secondary structure

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335

Helix Strand Turn

Details...

Beta strand

2 – 7

6

Helix

10 – 22

13

Beta strand

25 – 29

5

Helix

32 – 34

3

Helix

35 – 42

8

Turn

48 – 50

3

Beta strand

56 – 60

5

Helix

62 – 64

3

Helix

65 – 69

5

Beta strand

73 – 77

5

Helix

81 – 83

3

Helix

84 – 91

8

Turn

92 – 94

3

Beta strand

99 – 102

4

Beta strand

106 – 110

5

Beta strand

113 – 116

4

Helix

117 – 122

6

Helix

129 – 131

3

Beta strand

132 – 138

7

Helix

141 – 145

5

Beta strand

150 – 155

6

Helix

159 – 169

11

Beta strand

174 – 180

7

Helix

182 – 209

28

Helix

214 – 235

22

Helix

239 – 243

5

Turn

245 – 247

3

Helix

248 – 253

6

Turn

254 – 256

3

Helix

258 – 268

11

Helix

273 – 282

10

Helix

289 – 303

15

Helix

309 – 319

11

Helix

324 – 332

9

Sequences

	Sequence		Length	Mass (Da)
	O29390 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: E6B87240B92BD059	FASTA	335	36,785
	10 20 30 40 50 60 MIVSILGAGA MGSALSVPLV DNGNEVRIWG TEFDTEILKS ISAGREHPRL GVKLNGVEIF 70 80 90 100 110 120 WPEQLEKCLE NAEVVLLGVS TDGVLPVMSR ILPYLKDQYI VLISKGLIDF DNSVLTVPEA 130 140 150 160 170 180 VWRLKHDLRE RTVAITGPAI AREVAKRMPT TVVFSSPSES SANKMKEIFE TEYFGVEVTT 190 200 210 220 230 240 DIIGTEITSA LKNVYSIAIA WIRGYESRKN VEMSNAKGVI ATRAINEMAE LIEILGGDRE 250 260 270 280 290 300 TAFGLSGFGD LIATFRGGRN GMLGELLGKG LSIDEAMEEL ERRGVGVVEG YKTAEKAYRL 310 320 330 SSKINADTKL LDSIYRVLYE GLKVEEVLFE LATFK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus." Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A., Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L., Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D., Quackenbush J., Lee N.H., Sutton G.G. , Gill S.R., Kirkness E.F., Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N., Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R., Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D., Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P., Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M., Smith H.O., Woese C.R., Venter J.C. Nature 390:364-370(1997) [PubMed: 9389475] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126.
[2]	"Structural and functional analysis of the gpsA gene product of Archaeoglobus fulgidus: a glycerol-3-phosphate dehydrogenase with an unusual NADP+ preference." Sakasegawa S., Hagemeier C.H., Thauer R.K., Essen L.-O., Shima S. Protein Sci. 13:3161-3171(2004) [PubMed: 15557260] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS), FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, SUBUNIT.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AE000782 Genomic DNA. Translation: AAB90367.1.

PIR

G69358.

RefSeq

NP_069705.1. NC_000917.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1TXG	X-ray	1.70	A/B	1-335	[»]

ProteinModelPortal

O29390.

SMR

O29390. Positions 1-335.

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

1484091.

GenomeReviews

Gene locus AF_0871 in contig AE000782_GR.

KEGG

afu:AF0871.

NMPDR

fig|224325.1.peg.864.

TIGR

AF_0871.

Phylogenomic databases

HOGENOM

HBG586392.

OMA

NIATANI.

PhylomeDB

O29390.

ProtClustDB

CLSK2746635.

Enzyme and pathway databases

BioCyc

AFUL224325:AF_0871-MONOMER.

Family and domain databases

HAMAP

MF_00394. NAD_Glyc3P_dehydrog.
[Tree]

InterPro

IPR008927. 6-PGluconate_DH_C-like.
IPR013328. DH_multihelical.
IPR006168. G3P_DH_NAD-dep.
IPR006109. G3P_DH_NAD-dep_C.
IPR011128. G3P_DH_NAD-dep_N.
IPR016040. NAD(P)-bd_dom.
[Graphical view]

Gene3D

G3DSA:3.40.50.720. NAD(P)-bd. 1 hit.
G3DSA:1.10.1040.10. Opine_DH. 1 hit.

KO

K00057.

PANTHER

PTHR11728. NAD_Gly3P_DH. 1 hit.

Pfam

PF07479. NAD_Gly3P_dh_C. 1 hit.
PF01210. NAD_Gly3P_dh_N. 1 hit.
[Graphical view]

PIRSF

PIRSF000114. Glycerol-3-P_dh. 1 hit.

PRINTS

PR00077. GPDHDRGNASE.

SUPFAM

SSF48179. 6DGDH_C_like. 1 hit.

PROSITE

PS00957. NAD_G3PDH. False negative.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

GPDA_ARCFU

Accession

Primary (citable) accession number: O29390

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 2001
Last sequence update:	January 1, 1998
Last modified:	December 14, 2011
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