Reviewed, UniProtKB/Swiss-Prot O58320 (GYAR_PYRHO)

Names and origin

Protein names

Recommended name:
    Glyoxylate reductase
    EC=1.1.1.26

Gene names

Name:	gyaR
Ordered Locus Names:	PH0597

Organism

Pyrococcus horikoshii [Complete proteome] [HAMAP]

Taxonomic identifier

53953 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	334 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Catalytic activity	Glycolate + NAD+ = glyoxylate + NADH. HAMAP MF_00776
Subunit structure	Homodimer By similarity.
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family. GyaR subfamily.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	NAD
Molecular function	Oxidoreductase
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	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 glyoxylate reductase 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 – 334

334

Glyoxylate reductase HAMAP MF_00776

PRO_0000075949

Regions

Nucleotide binding

158 – 161

4

NADP HAMAP MF_00776

Nucleotide binding

180 – 182

3

NADP HAMAP MF_00776

Nucleotide binding

239 – 241

3

NADP HAMAP MF_00776

Nucleotide binding

288 – 290

3

NADP HAMAP MF_00776

Sites

Active site

241

1

By similarity

Active site

270

1

By similarity

Active site

288

1

Proton donor By similarity

Secondary structure

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334

Helix Strand Turn

Details...

Beta strand

4 – 9

6

Helix

13 – 20

8

Beta strand

23 – 27

5

Helix

36 – 42

7

Beta strand

47 – 51

5

Helix

59 – 63

5

Beta strand

70 – 76

7

Helix

83 – 88

6

Beta strand

92 – 94

3

Helix

101 – 117

17

Helix

119 – 127

9

Helix

130 – 133

4

Turn

140 – 143

4

Beta strand

152 – 156

5

Helix

160 – 171

12

Beta strand

175 – 179

5

Helix

185 – 191

7

Helix

198 – 204

7

Beta strand

206 – 210

5

Turn

216 – 220

5

Helix

224 – 229

6

Beta strand

235 – 238

4

Helix

242 – 244

3

Helix

247 – 255

9

Beta strand

258 – 265

8

Beta strand

268 – 271

4

Helix

275 – 279

5

Beta strand

283 – 285

3

Helix

294 – 312

19

Helix

325 – 328

4

Sequences

	Sequence		Length	Mass (Da)
	O58320-1 [UniParc]. Last modified May 10, 2004. Version 2. Checksum: C0056A354ECBE202	FASTA	334	38,000
	10 20 30 40 50 60 MKPKVFITRE IPEVGIKMLE DEFEVEVWGD EKEIPREILL KKVKEVDALV TMLSERIDKE 70 80 90 100 110 120 VFENAPKLRI VANYAVGYDN IDIEEATKRG IYVTNTPDVL TDATADLAFA LLLATARHVV 130 140 150 160 170 180 KGDRFVRSGE WKKRGVAWHP KWFLGYDVYG KTIGIIGLGR IGQAIAKRAK GFNMRILYYS 190 200 210 220 230 240 RTRKEEVERE LNAEFKPLED LLRESDFVVL AVPLTRETYH LINEERLKLM KKTAILINIA 250 260 270 280 290 300 RGKVVDTNAL VKALKEGWIA GAGLDVFEEE PYYNEELFKL DNVVLTPHIG SASFGAREGM 310 320 330 AELVAKNLIA FKRGEIPPTL VNREVIKIRK PGFE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. , Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Yoshizawa T., Nakamura Y., Robb F.T., Horikoshi K., Masuchi Y., Shizuya H., Kikuchi H. DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: OT3.
[2]	"Crystal structure of glyoxylate reductase (ph0597) from Pyrococcus horikoshii OT3, complexed with nadp (i41)." RIKEN structural genomics initiative (RSGI) Submitted (JUN-2006) to the PDB data bank Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS) IN COMPLEX WITH NADP. Strain: OT3.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

BA000001 Genomic DNA. Translation: BAA29686.1. Different initiation.

PIR

A71175.

RefSeq

NP_142561.2.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2DBQ	X-ray	1.70	A	1-334	[»]
2DBR	X-ray	2.61	A/B/C/D/E/F	1-334	[»]
2DBZ	X-ray	2.45	A/B	1-334	[»]

ModBase

Search...

Genome annotation databases

GeneID

1442932.

GenomeReviews

Gene locus PH0597 in contig BA000001_GR.

KEGG

pho:PH0597.

NMPDR

fig|70601.1.peg.585.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

O58320.

OMA

O58320. DFGFALM.

Enzyme and pathway databases

BRENDA

1.1.1.26. 74679.

Family and domain databases

HAMAP

MF_00776.
[Tree]

InterPro

IPR006139. D-isomer_2_OHA_DH.
IPR006140. D-isomer_2_OHA_DH_NAD-bd.
IPR016040. NAD(P)-bd_dom.
[Graphical view]

Gene3D

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

Pfam

PF00389. 2-Hacid_dh. 1 hit.
PF02826. 2-Hacid_dh_C. 1 hit.
[Graphical view]

PROSITE

PS00065. D_2_HYDROXYACID_DH_1. 1 hit.
PS00670. D_2_HYDROXYACID_DH_2. False negative.
PS00671. D_2_HYDROXYACID_DH_3. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

GYAR_PYRHO

Accession

Primary (citable) accession number: O58320

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 10, 2004
Last sequence update:	May 10, 2004
Last modified:	June 16, 2009
This is version 56 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)