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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: -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

Protein has several cofactor binding sites:
  • Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 1 Mg2+ or Mn2+ ion per subunit.UniRule annotation
  • Mn2+SAAS annotation

Pathwayi: L-leucine biosynthesis

This protein is involved in step 3 of the subpathway that synthesizes L-leucine from 3-methyl-2-oxobutanoate.UniRule annotationSAAS annotation
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. 2-isopropylmalate synthase (leuA)
  2. no protein annotated in this organism
  3. 3-isopropylmalate dehydrogenase (leuB)
  4. Branched-chain-amino-acid aminotransferase (ilvE)
This subpathway is part of the pathway L-leucine biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-leucine from 3-methyl-2-oxobutanoate, the pathway L-leucine biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei115SubstrateUniRule annotation1
Binding sitei125SubstrateUniRule annotation1
Binding sitei154SubstrateUniRule annotation1
Sitei161Important for catalysisUniRule annotation1
Sitei211Important for catalysisUniRule annotation1
Metal bindingi243Magnesium or manganeseUniRule annotation1
Binding sitei243SubstrateUniRule annotation1
Metal bindingi267Magnesium or manganeseUniRule annotation1
Metal bindingi271Magnesium or manganeseUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi94 – 107NADUniRule annotationAdd BLAST14
Nucleotide bindingi301 – 313NADUniRule annotationAdd BLAST13

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductaseUniRule annotationSAAS annotationImported
Biological processAmino-acid biosynthesis, Branched-chain amino acid biosynthesis, Leucine biosynthesisUniRule annotationSAAS annotation
LigandMagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, NADUniRule annotationSAAS annotation

Enzyme and pathway databases

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
Short name:
IMDHUniRule 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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesMorganellaceaeXenorhabdus
Proteomesi
  • UP000008075 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotationSAAS annotation

Protein-protein interaction databases

STRINGi406817.XNC1_1040

Structurei

3D structure databases

ProteinModelPortaliD3V8R3
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini22 – 371Iso_dhInterPro annotationAdd BLAST350

Phylogenomic databases

eggNOGiENOG4105C0C Bacteria
COG0473 LUCA
HOGENOMiHOG000021112
KOiK00052
OMAiEYDLGAR
OrthoDBiPOG091H01YH

Family and domain databases

HAMAPiMF_01033 LeuB_type1, 1 hit
InterProiView protein in InterPro
IPR019818 IsoCit/isopropylmalate_DH_CS
IPR024084 IsoPropMal-DH-like_dom
IPR004429 Isopropylmalate_DH
PANTHERiPTHR42979 PTHR42979, 1 hit
PfamiView protein in Pfam
PF00180 Iso_dh, 1 hit
SMARTiView protein in SMART
SM01329 Iso_dh, 1 hit
TIGRFAMsiTIGR00169 leuB, 1 hit
PROSITEiView protein in PROSITE
PS00470 IDH_IMDH, 1 hit

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
RefSeqiWP_013183629.1, NC_014228.1

Genome annotation databases

EnsemblBacteriaiCBJ89111; CBJ89111; XNC1_1040
KEGGixne:XNC1_1040

Similar proteinsi

Entry informationi

Entry nameiD3V8R3_XENNA
AccessioniPrimary (citable) accession number: D3V8R3
Entry historyiIntegrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: March 28, 2018
This is version 60 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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