IXR1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: IXR1
Primary source: SGD:S000001515
Locus tag: YKL032C
See related: AllianceGenome:SGD:S000001515; FungiDB:YKL032C; VEuPathDB:YKL032C
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: ORD1
Summary: Enables core promoter sequence-specific DNA binding activity and damaged DNA binding activity. Involved in several processes, including cellular response to hypoxia; regulation of nucleobase-containing compound metabolic process; and response to cisplatin. Colocalizes with chromatin. [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: XI

Exon count:: 1

Sequence:: Chromosome: XI; NC_001143.9 (380065..381858, complement)

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 RNA-binding protein Puf5 and the HMGB protein Ixr1 contribute to cell cycle progression through the regulation of cell cycle-specific expression of CLB1 in Saccharomyces cerevisiae.
Title: The RNA-binding protein Puf5 and the HMGB protein Ixr1 contribute to cell cycle progression through the regulation of cell cycle-specific expression of CLB1 in Saccharomyces cerevisiae.
Ixr1 regulates other transcriptional factors that respond to nutrient availability or extracellular and intracellular stress stimuli, some controlled by the TOR pathway and PKA signaling. Ixr1 controls transcription of ribosomal RNAs and genes encoding ribosomal proteins or involved in ribosome assembly.
Title: Ixr1 Regulates Ribosomal Gene Transcription and Yeast Response to Cisplatin.
Ixr1 differentially regulated genes related to the hypoxic and oxidative stress responses.
Title: Ixr1p and the control of the Saccharomyces cerevisiae hypoxic response.
the combined activity of the Hmo 1 and the Ixr1 proteins provides efficient correction of both repair and replication errors.
Title: [IXR1 and HMO1 genes jointly control the level of spontaneous mutagenesis in yeast Saccharomyces cerevisiae].
Ixr1p is necessary for the high expression of HEM13 under hypoxic conditions and its function is exerted in vivo through the HEM13 promoter region extending from -577 to -419.
Title: Ixr1p regulates oxygen-dependent HEM13 transcription.
Data show that transcriptional adaptation from aerobiosis to hypoxia depends on ROX1 and IXR1 cross-regulation.
Title: Regulatory factors controlling transcription of Saccharomyces cerevisiae IXR1 by oxygen levels: a model of transcriptional adaptation from aerobiosis to hypoxia implicating ROX1 and IXR1 cross-regulation.

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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 DNA binding	IEA Inferred from Electronic Annotation more info
enables core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables damaged DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to hypoxia	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cellular response to hypoxia	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of ribosome biogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: DNA-binding transcription repressor IXR1

NP_012893.3

Transcriptional repressor that regulates hypoxic genes during normoxia; involved in the aerobic repression of genes such as COX5b, TIR1, and HEM13; binds DNA intrastrand cross-links formed by cisplatin; HMG (high mobility group box) domain containing protein which binds and bends cisplatin-modified DNA, blocking excision repair; IXR1 has a paralog, ABF2, that arose from the whole genome duplication

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

380065..381858 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179598.3 → NP_012893.3 TPA: DNA-binding transcription repressor IXR1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012893.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VXQ4, P33417

UniProtKB/TrEMBL

C8ZCD8, N1NZ99

Conserved Domains (1) summary

COG5648
Location:338 → 501

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]