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Protein

NADP-specific glutamate dehydrogenase

Gene

gdh

Organism
Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the reversible oxidative deamination of glutamate to alpha-ketoglutarate and ammonia.By similarity

Catalytic activityi

L-glutamate + H2O + NADP+ = 2-oxoglutarate + NH3 + NADPH.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei92 – 921SubstrateBy similarity
Binding sitei113 – 1131SubstrateBy similarity
Binding sitei116 – 1161SubstrateBy similarity
Active sitei128 – 1281Proton donorPROSITE-ProRule annotation
Binding sitei167 – 1671Substrate; via carbonyl oxygenBy similarity
Sitei168 – 1681Important for catalysisBy similarity
Binding sitei212 – 2121NADPBy similarity
Binding sitei243 – 2431NADPBy similarity
Binding sitei379 – 3791SubstrateBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

NADP

Names & Taxonomyi

Protein namesi
Recommended name:
NADP-specific glutamate dehydrogenase (EC:1.4.1.4)
Short name:
NADP-GDH
Gene namesi
Name:gdh
Ordered Locus Names:Cgl2079, cg2280
OrganismiCorynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)
Taxonomic identifieri196627 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesCorynebacteriaceaeCorynebacterium
Proteomesi
  • UP000000582 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 447447NADP-specific glutamate dehydrogenasePRO_0000182768Add
BLAST

Proteomic databases

PRIDEiP31026.

Interactioni

Subunit structurei

Homohexamer.By similarity

Protein-protein interaction databases

STRINGi196627.cg2280.

Structurei

Secondary structure

1
447
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1715Combined sources
Turni18 – 203Combined sources
Helixi22 – 4120Combined sources
Helixi43 – 497Combined sources
Helixi50 – 545Combined sources
Beta strandi58 – 6811Combined sources
Beta strandi74 – 8512Combined sources
Beta strandi87 – 926Combined sources
Beta strandi95 – 973Combined sources
Helixi103 – 11917Combined sources
Beta strandi121 – 1233Combined sources
Beta strandi126 – 1327Combined sources
Helixi140 – 15415Combined sources
Helixi155 – 1573Combined sources
Turni160 – 1623Combined sources
Helixi173 – 18715Combined sources
Helixi192 – 1943Combined sources
Turni200 – 2034Combined sources
Turni206 – 2105Combined sources
Helixi211 – 22616Combined sources
Beta strandi235 – 2395Combined sources
Helixi243 – 25412Combined sources
Beta strandi258 – 2636Combined sources
Beta strandi268 – 2703Combined sources
Helixi277 – 2859Combined sources
Helixi291 – 2977Combined sources
Beta strandi302 – 3076Combined sources
Helixi309 – 3113Combined sources
Beta strandi315 – 3195Combined sources
Helixi328 – 3369Combined sources
Beta strandi341 – 3433Combined sources
Beta strandi345 – 3484Combined sources
Helixi352 – 3609Combined sources
Beta strandi364 – 3663Combined sources
Helixi368 – 3714Combined sources
Helixi374 – 38815Combined sources
Helixi394 – 41825Combined sources
Helixi425 – 44420Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5IJZX-ray2.29A/B/C/D/E/F/G/H/I/J/K/L1-447[»]
ProteinModelPortaliP31026.
SMRiP31026. Positions 3-446.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4107R37. Bacteria.
COG0334. LUCA.
HOGENOMiHOG000243799.
KOiK00262.
OMAiVPWVDDA.
OrthoDBiEOG65XN4D.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR006095. Glu/Leu/Phe/Val_DH.
IPR006096. Glu/Leu/Phe/Val_DH_C.
IPR006097. Glu/Leu/Phe/Val_DH_dimer_dom.
IPR014362. Glu_DH.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF00208. ELFV_dehydrog. 1 hit.
PF02812. ELFV_dehydrog_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000185. Glu_DH. 1 hit.
PRINTSiPR00082. GLFDHDRGNASE.
SMARTiSM00839. ELFV_dehydrog. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
PROSITEiPS00074. GLFV_DEHYDROGENASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P31026-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTVDEQVSNY YDMLLKRNAG EPEFHQAVAE VLESLKIVLE KDPHYADYGL
60 70 80 90 100
IQRLCEPERQ LIFRVPWVDD QGQVHVNRGF RVQFNSALGP YKGGLRFHPS
110 120 130 140 150
VNLGIVKFLG FEQIFKNSLT GLPIGGGKGG SDFDPKGKSD LEIMRFCQSF
160 170 180 190 200
MTELHRHIGE YRDVPAGDIG VGGREIGYLF GHYRRMANQH ESGVLTGKGL
210 220 230 240 250
TWGGSLVRTE ATGYGCVYFV SEMIKAKGES ISGQKIIVSG SGNVATYAIE
260 270 280 290 300
KAQELGATVI GFSDSSGWVH TPNGVDVAKL REIKEVRRAR VSVYADEVEG
310 320 330 340 350
ATYHTDGSIW DLKCDIALPC ATQNELNGEN AKTLADNGCR FVAEGANMPS
360 370 380 390 400
TPEAVEVFRE RDIRFGPGKA ANAGGVATSA LEMQQNASRD SWSFEYTDER
410 420 430 440
LQVIMKNIFK TCAETAAEYG HENDYVVGAN IAGFKKVADA MLAQGVI
Length:447
Mass (Da):48,988
Last modified:July 26, 2002 - v2
Checksum:i0338926EA7080E35
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti37 – 371I → L in CAA42048 (PubMed:1552846).Curated
Sequence conflicti371 – 41040ANAGG…KNIFK → TPEAVEVFRERDIRFGPGKA VNVGGVATSALEMQQNASRE in CAA42048 (PubMed:1552846).CuratedAdd
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59404 Genomic DNA. Translation: CAA42048.2.
X72855 Genomic DNA. Translation: CAA51376.1.
BA000036 Genomic DNA. Translation: BAB99472.1.
BX927154 Genomic DNA. Translation: CAF20415.1.
PIRiS32227.
RefSeqiNP_601279.1. NC_003450.3.
WP_003856385.1. NC_006958.1.

Genome annotation databases

EnsemblBacteriaiBAB99472; BAB99472; BAB99472.
CAF20415; CAF20415; cg2280.
GeneIDi1020031.
KEGGicgb:cg2280.
cgl:NCgl1999.
PATRICi21496158. VBICorGlu203724_2015.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59404 Genomic DNA. Translation: CAA42048.2.
X72855 Genomic DNA. Translation: CAA51376.1.
BA000036 Genomic DNA. Translation: BAB99472.1.
BX927154 Genomic DNA. Translation: CAF20415.1.
PIRiS32227.
RefSeqiNP_601279.1. NC_003450.3.
WP_003856385.1. NC_006958.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5IJZX-ray2.29A/B/C/D/E/F/G/H/I/J/K/L1-447[»]
ProteinModelPortaliP31026.
SMRiP31026. Positions 3-446.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi196627.cg2280.

Proteomic databases

PRIDEiP31026.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAB99472; BAB99472; BAB99472.
CAF20415; CAF20415; cg2280.
GeneIDi1020031.
KEGGicgb:cg2280.
cgl:NCgl1999.
PATRICi21496158. VBICorGlu203724_2015.

Phylogenomic databases

eggNOGiENOG4107R37. Bacteria.
COG0334. LUCA.
HOGENOMiHOG000243799.
KOiK00262.
OMAiVPWVDDA.
OrthoDBiEOG65XN4D.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR006095. Glu/Leu/Phe/Val_DH.
IPR006096. Glu/Leu/Phe/Val_DH_C.
IPR006097. Glu/Leu/Phe/Val_DH_dimer_dom.
IPR014362. Glu_DH.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF00208. ELFV_dehydrog. 1 hit.
PF02812. ELFV_dehydrog_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000185. Glu_DH. 1 hit.
PRINTSiPR00082. GLFDHDRGNASE.
SMARTiSM00839. ELFV_dehydrog. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
PROSITEiPS00074. GLFV_DEHYDROGENASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular analysis of the Corynebacterium glutamicum gdh gene encoding glutamate dehydrogenase."
    Boermann E.R., Eikmanns B.J., Sahm H.
    Mol. Microbiol. 6:317-326(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.
  2. Guyonvarch A., David F., Leblon G.
    Submitted (MAR-1993) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "The Corynebacterium glutamicum genome: features and impacts on biotechnological processes."
    Ikeda M., Nakagawa S.
    Appl. Microbiol. Biotechnol. 62:99-109(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.

Entry informationi

Entry nameiDHE4_CORGL
AccessioniPrimary (citable) accession number: P31026
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1993
Last sequence update: July 26, 2002
Last modified: June 8, 2016
This is version 108 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.