Reviewed, UniProtKB/Swiss-Prot Q56304 (DHE3_THELI)

Names and origin

Protein names

Recommended name:
    Glutamate dehydrogenase
      Short name=GDH
    EC=1.4.1.3

Gene names

Name:

gdhA

Organism

Thermococcus litoralis

Taxonomic identifier

2265 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Thermococcus

Protein attributes

Sequence length	419 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	L-glutamate + H2O + NAD(P)+ = 2-oxoglutarate + NH3 + NAD(P)H.
Subunit structure	Homohexamer. Ref.3
Subcellular location	Cytoplasm. Ref.2
Sequence similarities	Belongs to the Glu/Leu/Phe/Val dehydrogenases family.
biophysicochemical properties	pH dependence: Optimum pH is 8.0. Temperature dependence: Optimum temperature is above 95 degrees Celsius.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	NAD NADP
Molecular function	Oxidoreductase
Technical term	3D-structure Direct protein sequencing
Gene Ontology (GO)
Biological process	amino acid metabolic process Inferred from electronic annotation. Source: InterPro oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	binding Inferred from electronic annotation. Source: InterPro glutamate dehydrogenase [NAD(P)+] 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.2

Chain

2 – 419

418

Glutamate dehydrogenase

PRO_0000182762

Regions

Nucleotide binding

219 – 225

7

NAD Potential

Sites

Active site

105

1

By similarity

Secondary structure

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419

Helix Strand Turn

Details...

Helix

5 – 18

14

Helix

25 – 30

6

Beta strand

35 – 45

11

Beta strand

51 – 62

12

Beta strand

66 – 69

4

Beta strand

72 – 75

4

Helix

80 – 97

18

Beta strand

102 – 110

9

Helix

112 – 114

3

Helix

117 – 131

15

Helix

132 – 134

3

Turn

137 – 139

3

Helix

150 – 164

15

Helix

170 – 173

4

Beta strand

174 – 176

3

Helix

179 – 181

3

Helix

190 – 205

16

Beta strand

214 – 218

5

Helix

222 – 235

14

Beta strand

238 – 243

6

Beta strand

248 – 250

3

Helix

257 – 267

11

Beta strand

268 – 270

3

Beta strand

277 – 279

3

Helix

281 – 286

6

Beta strand

290 – 294

5

Helix

303 – 306

4

Beta strand

312 – 315

4

Beta strand

318 – 320

3

Helix

324 – 333

10

Beta strand

336 – 338

3

Helix

340 – 343

4

Helix

346 – 360

15

Helix

366 – 391

26

Helix

395 – 414

20

Sequences

	Sequence		Length	Mass (Da)
	Q56304-1 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 2768747A590B71F6	FASTA	419	46,740
	10 20 30 40 50 60 MVEQDPFEIA VKQLERAAQY MDISEEALEF LKRPQRIVEV SIPVEMDDGS VKVFTGFRVQ 70 80 90 100 110 120 YNWARGPTKG GIRWHPEETL STVKALAAWM TWKTAVMDLP YGGGKGGVIC NPKEMSDREK 130 140 150 160 170 180 ERLARGYVRA IYDVISPYTD IPAPDVYTNP QIMAWMMDEY ETISRRKDPS FGVITGKPPS 190 200 210 220 230 240 VGGIVARMDA TARGASYTVR EAAKALGMDL KGKTIAIQGY GNAGYYMAKI MSEEYGMKVV 250 260 270 280 290 300 AVSDTKGGIY NPDGLNADEV LAWKKKTGSV KDFPGATNIT NEELLELEVD VLAPSAIEEV 310 320 330 340 350 360 ITKKNADNIK AKIVAELANG PTTPEADEIL YEKGILIIPD FLCNAGGVTV SYFEWVQNIT 370 380 390 400 410 GDYWTVEETR AKLDKKMTKA FWDVYNTHKE KNINMRDAAY VVAVSRVYQA MKDRGWIKK

References

[1]	"Cloning and sequencing of glutamate dehydrogenases from hyperthermophilic archaea." Borges K.M., Diruggiero J., Robb F.T. Submitted (JUN-1993) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Purification and characterization of NADP-specific alcohol dehydrogenase and glutamate dehydrogenase from the hyperthermophilic archaeon Thermococcus litoralis." Ma K., Robb F.T., Adams M.W.W. Appl. Environ. Microbiol. 60:562-568(1994) [PubMed: 8135516] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-21, SUBCELLULAR LOCATION. Strain: DSM 5473.
[3]	"Structure determination of the glutamate dehydrogenase from the hyperthermophile Thermococcus litoralis and its comparison with that from Pyrococcus furiosus." Britton K.L., Yip K.S.P., Sedelnikova S.E., Stillman T.J., Adams M.W.W., Ma K., Maeder D.L., Robb F.T., Tolliday N., Vetriani C., Rice D.W., Baker P.J. J. Mol. Biol. 293:1121-1132(1999) [PubMed: 10547290] [Abstract] Cited for: SUBUNIT, X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).

Cross-references

Sequence databases

EMBLGenBankDDBJ

L19995 Genomic DNA. Translation: AAA72393.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1BVU	X-ray	2.50	A/B/C/D/E/F	2-419	[»]

ModBase

Search...

Enzyme and pathway databases

BRENDA

1.4.1.3. 74708.

Family and domain databases

InterPro

IPR006095. Glu/Leu/Phe/Val_DH.
IPR006096. Glu/Leu/Phe/Val_DH_C.
IPR006097. Glu/Leu/Phe/Val_DH_dimer.
IPR014362. Glu_DH.
IPR016040. NAD(P)-bd_dom.
[Graphical view]

Gene3D

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

PANTHER

PTHR11606:SF2. GLFV_DH. 1 hit.

Pfam

PF00208. ELFV_dehydrog. 1 hit.
PF02812. ELFV_dehydrog_N. 1 hit.
[Graphical view]

PIRSF

PIRSF000185. Glu_DH. 1 hit.

PRINTS

PR00082. GLFDHDRGNASE.

PROSITE

PS00074. GLFV_DEHYDROGENASE. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

DHE3_THELI

Accession

Primary (citable) accession number: Q56304
Secondary accession number(s): Q9UWK7

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	January 23, 2007
Last modified:	June 16, 2009
This is version 59 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

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