YNK1 nucleoside diphosphate kinase [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: YNK1
Official Full Name: nucleoside diphosphate kinase
Primary source: SGD:S000001550
Locus tag: YKL067W
See related: AllianceGenome:SGD:S000001550; FungiDB:YKL067W; VEuPathDB:YKL067W
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: NDK1
Summary: Enables nucleoside diphosphate kinase activity. Involved in DNA damage response. Located in cytosol and mitochondrial intermembrane space. Human ortholog(s) of this gene implicated in neuroblastoma; ovary epithelial cancer; and teratoma. Orthologous to several human genes including NME2 (NME/NM23 nucleoside diphosphate kinase 2) and NME1-NME2 (NME1-NME2 readthrough). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See YNK1 in Genome Data Viewer

Location:: chromosome: XI

Exon count:: 1

Sequence:: Chromosome: XI; NC_001143.9 (314812..315273)

Chromosome XI - NC_001143.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001143.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The study indicates a novel role for YNK1 in DNA repair in yeast, and suggests an anti-mutator function that may contribute to the metastasis suppressor function of NM23-H1 in humans.
Title: YNK1, the yeast homolog of human metastasis suppressor NM23, is required for repair of UV radiation- and etoposide-induced DNA damage.
Crystal structure of Ynk1 provides further insights into the interface and interactions between the dimers and the conserved residues involved in quaternary-structure formation.
Title: Structure of Ynk1 from the yeast 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 ATP binding	IEA Inferred from Electronic Annotation more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleoside diphosphate kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables nucleoside diphosphate kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables nucleoside diphosphate kinase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in CTP biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in DNA damage response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in GTP biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in UTP biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in nucleoside triphosphate biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in nucleotide metabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial intermembrane space	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial intermembrane space	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	HDA more info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: nucleoside diphosphate kinase

NP_012856.1

EC 2.7.4.6

Nucleoside diphosphate kinase; catalyzes the transfer of gamma phosphates from nucleoside triphosphates, usually ATP, to nucleoside diphosphates by a mechanism that involves formation of an autophosphorylated enzyme intermediate; protein abundance increases in response to DNA replication stress

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_001143.9 Reference assembly

Range

314812..315273

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179633.1 → NP_012856.1 TPA: nucleoside diphosphate kinase [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012856.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VXM0, P36010

UniProtKB/TrEMBL

A6ZZP9, B3LR24, C7GP04, C8ZCA5, G2WHW5, N1P086

Conserved Domains (1) summary

cl00335
Location:4 → 152

NDPk; Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are ...