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D3V8R3

- D3V8R3_XENNA

UniProt

D3V8R3 - D3V8R3_XENNA

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Protein
3-isopropylmalate dehydrogenase
Gene
leuB, XNC1_1040
Organism
Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)
Status
Unreviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate By similarity.UniRule annotationSAAS annotations

Catalytic activityi

(2R,3S)-3-isopropylmalate + NAD+ = 4-methyl-2-oxopentanoate + CO2 + NADH.UniRule annotationSAAS annotations

Cofactori

Binds 1 magnesium or manganese ion per subunit By similarity.UniRule annotationSAAS annotations

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei115 – 1151Substrate By similarityUniRule annotation
Binding sitei125 – 1251Substrate By similarityUniRule annotation
Binding sitei154 – 1541Substrate By similarityUniRule annotation
Sitei161 – 1611Important for catalysis By similarityUniRule annotation
Sitei211 – 2111Important for catalysis By similarityUniRule annotation
Metal bindingi243 – 2431Magnesium or manganese By similarityUniRule annotation
Binding sitei243 – 2431Substrate By similarityUniRule annotation
Metal bindingi267 – 2671Magnesium or manganese By similarityUniRule annotation
Metal bindingi271 – 2711Magnesium or manganese By similarityUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi94 – 10714NAD By similarityUniRule annotation
Add
BLAST
Nucleotide bindingi301 – 31313NAD By similarityUniRule annotation
Add
BLAST

GO - Molecular functioni

  1. 3-isopropylmalate dehydrogenase activity Source: UniProtKB-HAMAP
  2. NAD binding Source: InterPro
  3. magnesium ion binding Source: InterPro

GO - Biological processi

  1. leucine biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

OxidoreductaseUniRule annotationSAAS annotationsImported

Keywords - Biological processi

Amino-acid biosynthesis, Branched-chain amino acid biosynthesis, Leucine biosynthesisUniRule annotationSAAS annotations

Keywords - Ligandi

MagnesiumUniRule annotationSAAS annotations, ManganeseUniRule annotationSAAS annotations, Metal-bindingUniRule annotationSAAS annotations, NADUniRule annotationSAAS annotations

Enzyme and pathway databases

BioCyciXNEM406817:GHY4-1044-MONOMER.
UniPathwayiUPA00048; UER00072.

Names & Taxonomyi

Protein namesi
Recommended name:
3-isopropylmalate dehydrogenaseUniRule annotation (EC:1.1.1.85UniRule annotation)
Alternative name(s):
3-IPM-DH
Beta-IPM dehydrogenase
Gene namesi
Name:leuBUniRule annotationImported
Ordered Locus Names:XNC1_1040Imported
OrganismiXenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)Imported
Taxonomic identifieri406817 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeXenorhabdus
ProteomesiUP000008075: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotationSAAS annotations

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotations

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotationSAAS annotations

Structurei

3D structure databases

ProteinModelPortaliD3V8R3.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000021112.
KOiK00052.

Family and domain databases

Gene3Di3.40.718.10. 1 hit.
HAMAPiMF_01033. LeuB_type1.
InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
IPR001804. Isocitrate/isopropylmalate_DH.
IPR024084. IsoPropMal-DH-like_dom.
IPR004429. Isopropylmalate_DH.
[Graphical view]
PANTHERiPTHR11835. PTHR11835. 1 hit.
PfamiPF00180. Iso_dh. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00169. leuB. 1 hit.
PROSITEiPS00470. IDH_IMDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D3V8R3-1 [UniParc]FASTAAdd to Basket

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MSSSQSISNN TIANKQKANH FHIAVLPGDG IGPEVMKQAY KILDAIRHRF    50
NIRITTSEYD IGGIAIDRHG SPLPQETVIG CEKADAILFG SVGGPKWEHL 100
PPSQQPERGA LLPLRKHFKL FSNLRPARLY RGLESFCPLR HDIATKGFDI 150
LCVRELTGGI YFGQPKGREG KGKYERAFDT EIYHRFEIER IAHIAFQSAR 200
KRRHKVTSID KANVLQSSVL WREIVSEIAK DYPDVEINHM YIDNATMQLI 250
KNPAQFDVLL CSNIFGDILS DECAMITGSM GMLPSASLNE KGFGLYEPAG 300
GSAPDIAGKN IANPIAQILS VALLLRYSFE CNDAANAIEQ AINQALEQGY 350
RTADLTSNDN TISTDEMGDI IARYITEEYR KTISLSSLT 389
Length:389
Mass (Da):43,187
Last modified:April 20, 2010 - v1
Checksum:i19BE10E3F3374F27
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FN667742 Genomic DNA. Translation: CBJ89111.1.
RefSeqiWP_013183629.1. NC_014228.1.
YP_003711322.1. NC_014228.1.

Genome annotation databases

EnsemblBacteriaiCBJ89111; CBJ89111; XNC1_1040.
GeneIDi9433081.
KEGGixne:XNC1_1040.
PATRICi42461937. VBIXenNem38452_0958.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
FN667742 Genomic DNA. Translation: CBJ89111.1 .
RefSeqi WP_013183629.1. NC_014228.1.
YP_003711322.1. NC_014228.1.

3D structure databases

ProteinModelPortali D3V8R3.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CBJ89111 ; CBJ89111 ; XNC1_1040 .
GeneIDi 9433081.
KEGGi xne:XNC1_1040.
PATRICi 42461937. VBIXenNem38452_0958.

Phylogenomic databases

HOGENOMi HOG000021112.
KOi K00052.

Enzyme and pathway databases

UniPathwayi UPA00048 ; UER00072 .
BioCyci XNEM406817:GHY4-1044-MONOMER.

Family and domain databases

Gene3Di 3.40.718.10. 1 hit.
HAMAPi MF_01033. LeuB_type1.
InterProi IPR019818. IsoCit/isopropylmalate_DH_CS.
IPR001804. Isocitrate/isopropylmalate_DH.
IPR024084. IsoPropMal-DH-like_dom.
IPR004429. Isopropylmalate_DH.
[Graphical view ]
PANTHERi PTHR11835. PTHR11835. 1 hit.
Pfami PF00180. Iso_dh. 1 hit.
[Graphical view ]
TIGRFAMsi TIGR00169. leuB. 1 hit.
PROSITEi PS00470. IDH_IMDH. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete genome sequence of Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)."
    Goodrich-Blair H., Barbazuk B., Bode H.B., Darby C., Du Z., Forst S., Gaudriault S., Goldman B.S., Goodner B., Henkhaus J., Latreille P., Medigue C., Miller N., Norton S., Ogier J.C., Rouy Z., Slater S., Suen G.
    Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6.
  2. "The entomopathogenic bacterial endosymbionts xenorhabdus and photorhabdus: convergent lifestyles from divergent genomes."
    Chaston J.M., Suen G., Tucker S.L., Andersen A.W., Bhasin A., Bode E., Bode H.B., Brachmann A.O., Cowles C.E., Cowles K.N., Darby C., de Leon L., Drace K., Du Z., Givaudan A., Herbert Tran E.E., Jewell K.A., Knack J.J.
    , Krasomil-Osterfeld K.C., Kukor R., Lanois A., Latreille P., Leimgruber N.K., Lipke C.M., Liu R., Lu X., Martens E.C., Marri P.R., Medigue C., Menard M.L., Miller N.M., Morales-Soto N., Norton S., Ogier J.C., Orchard S.S., Park D., Park Y., Qurollo B.A., Sugar D.R., Richards G.R., Rouy Z., Slominski B., Slominski K., Snyder H., Tjaden B.C., van der Hoeven R., Welch R.D., Wheeler C., Xiang B., Barbazuk B., Gaudriault S., Goodner B., Slater S.C., Forst S., Goldman B.S., Goodrich-Blair H.
    PLoS ONE 6:e27909-e27909(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6.

Entry informationi

Entry nameiD3V8R3_XENNA
AccessioniPrimary (citable) accession number: D3V8R3
Entry historyi
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: September 3, 2014
This is version 30 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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