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D3V8R3

- D3V8R3_XENNA

UniProt

D3V8R3 - D3V8R3_XENNA

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Protein

3-isopropylmalate dehydrogenase

Gene

leuB

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.UniRule annotationSAAS annotation

Catalytic activityi

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

Cofactori

Note: Binds 1 magnesium or manganese ion per subunit.UniRule annotationSAAS annotation

Pathwayi

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi94 – 10714NADUniRule annotationAdd
BLAST
Nucleotide bindingi301 – 31313NADUniRule annotationAdd
BLAST

GO - Molecular functioni

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

GO - Biological processi

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

Keywords - Molecular functioni

OxidoreductaseUniRule annotation

Keywords - Biological processi

Amino-acid biosynthesis, Branched-chain amino acid biosynthesis, Leucine biosynthesisUniRule annotation

Keywords - Ligandi

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

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-DHUniRule annotation
Beta-IPM dehydrogenaseUniRule annotation
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 UniRule annotationSAAS annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotationSAAS annotation

Structurei

3D structure databases

ProteinModelPortaliD3V8R3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the isocitrate and isopropylmalate dehydrogenases family. LeuB type 1 subfamily.UniRule annotation

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

« Hide

        10         20         30         40         50
MSSSQSISNN TIANKQKANH FHIAVLPGDG IGPEVMKQAY KILDAIRHRF
60 70 80 90 100
NIRITTSEYD IGGIAIDRHG SPLPQETVIG CEKADAILFG SVGGPKWEHL
110 120 130 140 150
PPSQQPERGA LLPLRKHFKL FSNLRPARLY RGLESFCPLR HDIATKGFDI
160 170 180 190 200
LCVRELTGGI YFGQPKGREG KGKYERAFDT EIYHRFEIER IAHIAFQSAR
210 220 230 240 250
KRRHKVTSID KANVLQSSVL WREIVSEIAK DYPDVEINHM YIDNATMQLI
260 270 280 290 300
KNPAQFDVLL CSNIFGDILS DECAMITGSM GMLPSASLNE KGFGLYEPAG
310 320 330 340 350
GSAPDIAGKN IANPIAQILS VALLLRYSFE CNDAANAIEQ AINQALEQGY
360 370 380
RTADLTSNDN TISTDEMGDI IARYITEEYR KTISLSSLT
Length:389
Mass (Da):43,187
Last modified:April 20, 2010 - v1
Checksum:i19BE10E3F3374F27
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FN667742 Genomic DNA. Translation: CBJ89111.1.
RefSeqiYP_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:
EMBLi
GenBanki
DDBJi
Links Updated
FN667742 Genomic DNA. Translation: CBJ89111.1 .
RefSeqi 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 / AN6Imported.
  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 / AN6Imported.

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: November 26, 2014
This is version 33 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3