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Protein

Glutamate dehydrogenase

Gene

gdhA

Organism
Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

L-glutamate + H2O + NAD(P)+ = 2-oxoglutarate + NH3 + NAD(P)H.PROSITE-ProRule annotation

Temperature dependencei

Optimum temperature is 75 degrees Celsius. Thermostable.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei105 – 1051

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

NAD, NADP

Enzyme and pathway databases

BioCyciRETL1328306-WGS:GSTH-4406-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Glutamate dehydrogenase (EC:1.4.1.3)
Short name:
GDH
Gene namesi
Name:gdhA
Synonyms:gdh
Ordered Locus Names:TM_1015
OrganismiThermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Taxonomic identifieri243274 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga
ProteomesiUP000008183 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 416415Glutamate dehydrogenasePRO_0000182764Add
BLAST

Interactioni

Subunit structurei

Homohexamer.

Protein-protein interaction databases

STRINGi243274.TM1015.

Structurei

Secondary structure

1
416
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi6 – 2015Combined sources
Helixi25 – 328Combined sources
Beta strandi35 – 4511Combined sources
Beta strandi51 – 6212Combined sources
Beta strandi66 – 694Combined sources
Beta strandi72 – 776Combined sources
Helixi80 – 9718Combined sources
Beta strandi103 – 1097Combined sources
Helixi112 – 1143Combined sources
Helixi117 – 13014Combined sources
Helixi132 – 1343Combined sources
Turni137 – 1393Combined sources
Beta strandi140 – 1434Combined sources
Helixi150 – 16415Combined sources
Beta strandi171 – 1744Combined sources
Helixi177 – 1793Combined sources
Turni183 – 1875Combined sources
Helixi188 – 20316Combined sources
Turni208 – 2103Combined sources
Beta strandi212 – 2165Combined sources
Helixi220 – 23112Combined sources
Beta strandi236 – 2416Combined sources
Beta strandi246 – 2483Combined sources
Helixi255 – 26410Combined sources
Beta strandi265 – 2684Combined sources
Beta strandi272 – 2776Combined sources
Helixi279 – 2824Combined sources
Beta strandi288 – 2925Combined sources
Helixi301 – 3044Combined sources
Beta strandi310 – 3134Combined sources
Beta strandi316 – 3183Combined sources
Helixi322 – 3309Combined sources
Beta strandi334 – 3363Combined sources
Helixi338 – 3414Combined sources
Helixi344 – 35714Combined sources
Helixi364 – 38926Combined sources
Helixi393 – 41119Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B26X-ray3.00A/B/C/D/E/F1-416[»]
1B3BX-ray3.10A/B/C/D/E/F2-416[»]
2TMGX-ray2.90A/B/C/D/E/F2-416[»]
ProteinModelPortaliP96110.
SMRiP96110. Positions 5-413.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP96110.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0334.
InParanoidiP96110.
KOiK00261.
OMAiYINAIQK.
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]
PROSITEiPS00074. GLFV_DEHYDROGENASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P96110-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEKSLYEMA VEQFNRAASL MDLESDLAEV LRRPKRVLIV EFPVRMDDGH
60 70 80 90 100
VEVFTGYRVQ HNVARGPAKG GIRYHPDVTL DEVKALAFWM TWKTAVMNLP
110 120 130 140 150
FGGGKGGVRV DPKKLSRNEL ERLSRRFFSE IQVIIGPYND IPAPDVNTNA
160 170 180 190 200
DVMAWYMDTY SMNVGHTVLG IVTGKPVELG GSKGREEATG RGVKVCAGLA
210 220 230 240 250
MDVLGIDPKK ATVAVQGFGN VGQFAALLIS QELGSKVVAV SDSRGGIYNP
260 270 280 290 300
EGFDVEELIR YKKEHGTVVT YPKGERITNE ELLELDVDIL VPAALEGAIH
310 320 330 340 350
AGNAERIKAK AVVEGANGPT TPEADEILSR RGILVVPDIL ANAGGVTVSY
360 370 380 390 400
FEWVQDLQSF FWDLDQVRNA LEKMMKGAFN DVMKVKEKYN VDMRTAAYIL
410
AIDRVAYATK KRGIYP
Length:416
Mass (Da):45,821
Last modified:January 23, 2007 - v4
Checksum:iD7294929879CB4F2
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti153 – 1531M → I in CAA71058 (PubMed:9680336).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y09925 Genomic DNA. Translation: CAA71058.1.
AE000512 Genomic DNA. Translation: AAD36092.1.
PIRiG72305.
T45284.
RefSeqiNP_228821.1. NC_000853.1.
WP_004080520.1. NC_023151.1.
YP_007977367.1. NC_021214.1.
YP_008991888.1. NC_023151.1.

Genome annotation databases

EnsemblBacteriaiAAD36092; AAD36092; TM_1015.
GeneIDi896847.
KEGGitma:TM1015.
tmi:THEMA_09280.
tmm:Tmari_1018.
PATRICi23936959. VBITheMar51294_1028.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y09925 Genomic DNA. Translation: CAA71058.1.
AE000512 Genomic DNA. Translation: AAD36092.1.
PIRiG72305.
T45284.
RefSeqiNP_228821.1. NC_000853.1.
WP_004080520.1. NC_023151.1.
YP_007977367.1. NC_021214.1.
YP_008991888.1. NC_023151.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B26X-ray3.00A/B/C/D/E/F1-416[»]
1B3BX-ray3.10A/B/C/D/E/F2-416[»]
2TMGX-ray2.90A/B/C/D/E/F2-416[»]
ProteinModelPortaliP96110.
SMRiP96110. Positions 5-413.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243274.TM1015.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD36092; AAD36092; TM_1015.
GeneIDi896847.
KEGGitma:TM1015.
tmi:THEMA_09280.
tmm:Tmari_1018.
PATRICi23936959. VBITheMar51294_1028.

Phylogenomic databases

eggNOGiCOG0334.
InParanoidiP96110.
KOiK00261.
OMAiYINAIQK.
OrthoDBiEOG65XN4D.

Enzyme and pathway databases

BioCyciRETL1328306-WGS:GSTH-4406-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP96110.

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]
PROSITEiPS00074. GLFV_DEHYDROGENASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Glutamate dehydrogenase from the hyperthermophilic bacterium Thermotoga maritima: molecular characterization and phylogenetic implications."
    Kort R., Liebl W., Labedan B., Forterre P., Eggen R.I.L., de Vos W.M.
    Extremophiles 1:52-60(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 2-13, CHARACTERIZATION.
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099.
  3. "Crystal structure of glutamate dehydrogenase from the hyperthermophilic eubacterium Thermotoga maritima at 3.0-A resolution."
    Knapp S., de Vos W.M., Rice D., Ladenstein R.
    J. Mol. Biol. 267:916-932(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS).
  4. "Engineering activity and stability of Thermotoga maritima glutamate dehydrogenase. I. Introduction of a six-residue ion-pair network in the hinge region."
    Lebbink J.H., Knapp S., van der Oost J., Rice D., Ladenstein R., de Vos W.M.
    J. Mol. Biol. 280:287-296(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS).
  5. "Engineering activity and stability of Thermotoga maritima glutamate dehydrogenase. II: construction of a 16-residue ion-pair network at the subunit interface."
    Lebbink J.H., Knapp S., van der Oost J., Rice D., Ladenstein R., de Vos W.M.
    J. Mol. Biol. 289:357-369(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.9 ANGSTROMS).

Entry informationi

Entry nameiDHE3_THEMA
AccessioniPrimary (citable) accession number: P96110
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: January 23, 2007
Last modified: May 27, 2015
This is version 112 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

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

External Data

Dasty 3

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 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.