Reviewed, UniProtKB/Swiss-Prot Q89X19 (LEU32_BRAJA)

Names and origin

Protein names

Recommended name:
    3-isopropylmalate dehydrogenase 2
    EC=1.1.1.85
Alternative name(s):
    Beta-IPM dehydrogenase 2
      Short name=IMDH 2
    3-IPM-DH 2

Gene names

Name:	leuB2
Ordered Locus Names:	bll0504

Organism

Bradyrhizobium japonicum [Complete proteome] [HAMAP]

Taxonomic identifier

375 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Bradyrhizobium

Protein attributes

Sequence length	370 AA.
Sequence status	Complete.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	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. HAMAP MF_01033
Catalytic activity	(2R,3S)-3-isopropylmalate + NAD+ = 4-methyl-2-oxopentanoate + CO2 + NADH. HAMAP MF_01033
Cofactor	Binds 1 magnesium or manganese ion per subunit By similarity. HAMAP MF_01033
Pathway	Amino-acid biosynthesis; L-leucine biosynthesis; L-leucine from 3-methyl-2-oxobutanoate: step 3/4. HAMAP MF_01033
Subunit structure	Homodimer By similarity. HAMAP MF_01033
Subcellular location	Cytoplasm By similarity HAMAP MF_01033.
Sequence similarities	Belongs to the isocitrate and isopropylmalate dehydrogenases family. LeuB type 1 subfamily.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Branched-chain amino acid biosynthesis Leucine biosynthesis
Cellular component	Cytoplasm
Ligand	Magnesium Manganese Metal-binding NAD
Molecular function	Oxidoreductase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	leucine biosynthetic process Inferred from electronic annotation. Source: HAMAP oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	3-isopropylmalate dehydrogenase activity Inferred from electronic annotation. Source: HAMAP NAD or NADH binding Inferred from electronic annotation. Source: InterPro magnesium ion binding Inferred from electronic annotation. Source: UniProtKB-KW manganese ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 370	370	3-isopropylmalate dehydrogenase 2 HAMAP MF_01033		PRO_0000083652
Regions
	Nucleotide binding	77 – 90	14	NAD By similarity
	Nucleotide binding	290 – 302	13	NAD By similarity
Sites
	Metal binding	226	1	Magnesium or manganese By similarity
	Metal binding	250	1	Magnesium or manganese By similarity
	Metal binding	254	1	Magnesium or manganese By similarity
	Binding site	97	1	Substrate By similarity
	Binding site	107	1	Substrate By similarity
	Binding site	135	1	Substrate By similarity
	Binding site	226	1	Substrate By similarity
	Site	142	1	Important for catalysis By similarity
	Site	193	1	Important for catalysis By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q89X19-1 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: 54FB249F9F1578AD	FASTA	370	39,707
	10 20 30 40 50 60 MATHKLLLLP GDGIGPEVMG EVKRLIDWLN SAGIAKFETD TGLVGGSAYD AHKVSISEGD 70 80 90 100 110 120 MAKALAADAI IFGAVGGPKW DAVPYEVRPE AGLLRLRKDL GLFANLRPAV CYPALADASS 130 140 150 160 170 180 LKREAVEGLD IMIVRELTGG VYFGEPKTIT DLGNGQKRAI DTQVYDTYEI ERIARVAFDL 190 200 210 220 230 240 AKKRKNKVTS MEKRNVMKSG VLWNEVVTQV HKREYPDVTL EHQLADSGGM MLVKWPKQFD 250 260 270 280 290 300 VIVTDNLFGD MLSDIAAMLT GSLGMLPSAS LGEVDVKSKK RKALYEPVHG SAPDIAGKGL 310 320 330 340 350 360 ANPIAMISSF GMALRYSFDM GALADKVDAA IAAVLASGLR TADIKSEGTT AASTTQMGEA 370 ILKELQKLHA

References

[1]

"Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110." Kaneko T., Nakamura Y., Sato S., Minamisawa K., Uchiumi T., Sasamoto S., Watanabe A., Idesawa K., Iriguchi M., Kawashima K., Kohara M., Matsumoto M., Shimpo S., Tsuruoka H., Wada T., Yamada M., Tabata S. DNA Res. 9:189-197(2002) [PubMed: 12597275] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: USDA 110.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BA000040 Genomic DNA. Translation: BAC45768.1.
RefSeq	NP_767143.1.
3D structure databases
SMR	Q89X19. Positions 4-367.
ModBase	Search...
Genome annotation databases
GeneID	1049819.
GenomeReviews	Gene locus bll0504 in contig BA000040_GR.
KEGG	bja:bll0504.
NMPDR	fig|224911.1.peg.503.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG518924.
OMA	MSYQIAV.
PhylomeDB	Q89X19.
Enzyme and pathway databases
BioCyc	BJAP224911:BLL0504-MONOMER.
BRENDA	1.1.1.85. 280.
Family and domain databases
HAMAP	MF_01033. LeuB_type1. [Tree]
InterPro	IPR019818. IsoCit/isopropylmalate_DH_CS. IPR001804. Isocitrate/isopropylmalate_DH. IPR004429. Isopropylmalate_DH. [Graphical view]
Gene3D	G3DSA:3.40.718.10. IDH_IMDH. 1 hit.
PANTHER	PTHR11835. IDH_IMDH_dimeric. 1 hit. PTHR11835:SF13. IPMDH. 1 hit.
Pfam	PF00180. Iso_dh. 1 hit. [Graphical view]
TIGRFAMs	TIGR00169. leuB. 1 hit.
PROSITE	PS00470. IDH_IMDH. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

LEU32_BRAJA

Accession

Primary (citable) accession number: Q89X19

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	June 1, 2003
Last modified:	February 9, 2010
This is version 46 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)