LYS12 homoisocitrate dehydrogenase [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: LYS12
Gene description: homoisocitrate dehydrogenase
Primary source: FungiDB:YIL094C
Locus tag: YIL094C
See related: SGD:S000001356; AllianceGenome:SGD:S000001356
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: LYS10; LYS11
Summary: Enables homoisocitrate dehydrogenase activity. Predicted to be involved in lysine biosynthetic process. Located in mitochondrion. [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See LYS12 in Genome Data Viewer

Location:: chromosome: IX

Exon count:: 1

Sequence:: Chromosome: IX; NC_001141.2 (186517..187632, complement)

Chromosome IX - NC_001141.2 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001141.2

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This pH independence of the chemical reaction over the range 5.5-9.5 is consistent with the much slower conformational change that would effectively perturb the observed pK values for catalytic groups to lower and higher pH
Title: Evidence for an induced conformational change in the catalytic mechanism of homoisocitrate dehydrogenase for Saccharomyces cerevisiae: Characterization of the D271N mutant enzyme.
Data suggest that K206 of homoisocitrate dehydrogenase acts as a general base in the hydride transfer step of the wild-type enzyme but as a general acid in the Y150F mutant enzyme, replacing Y150 in the tautomerization reaction.
Title: Site-directed mutagenesis as a probe of the acid-base catalytic mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae.
kinetic mechanism in toward oxidative decarboxylation of isocitrate, based on initial velocity studies in absence & presence of dead-end inhibitors, suggests random addition of NAD & isocitrate with Mg2+ binding before isocitrate in rapid equilibrium
Title: Complete kinetic mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables NAD binding	IEA Inferred from Electronic Annotation more info
enables homoisocitrate dehydrogenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables homoisocitrate dehydrogenase activity	IDA Inferred from Direct Assay more info	PubMed
enables homoisocitrate dehydrogenase activity	IEA Inferred from Electronic Annotation more info
enables isocitrate dehydrogenase (NAD+) activity	IBA Inferred from Biological aspect of Ancestor more info
enables magnesium ion binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in isocitrate metabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysine biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysine biosynthetic process	IC Inferred by Curator more info	PubMed
involved_in lysine biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in lysine biosynthetic process via aminoadipic acid	IEA Inferred from Electronic Annotation more info
involved_in tricarboxylic acid cycle	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in mitochondrion	HDA more info	PubMed
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: homoisocitrate dehydrogenase

NP_012172.1

EC 1.1.1.87

Homo-isocitrate dehydrogenase; an NAD-linked mitochondrial enzyme required for the fourth step in the biosynthesis of lysine, in which homo-isocitrate is oxidatively decarboxylated to alpha-ketoadipate

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001141.2 Reference assembly

Range

186517..187632 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179442.1 → NP_012172.1 TPA: homoisocitrate dehydrogenase [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012172.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VVJ3, P40495

UniProtKB/TrEMBL

A0A6A5Q3G1, B3LTU1, B5VKL3, C7GKM1, C8ZAF6, G2WG58, N1P2I0

Conserved Domains (1) summary

COG0473
Location:21 → 371

LeuB; Isocitrate/isopropylmalate dehydrogenase [Energy production and conversion, Amino acid transport and metabolism]