INO80 INO80 complex ATPase subunit [Homo sapiens (human)] - Gene

Summary

Official Symbol: INO80provided by HGNC
Official Full Name: INO80 complex ATPase subunitprovided by HGNC
Primary source: HGNC:HGNC:26956
See related: Ensembl:ENSG00000128908 MIM:610169; AllianceGenome:HGNC:26956
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: INOC1; INO80A
Summary: This gene encodes a subunit of the chromatin remodeling complex, which is classified into subfamilies depending on sequence features apart from the conserved ATPase domain. This protein is the catalytic ATPase subunit of the INO80 chromatin remodeling complex, which is characterized by a DNA-binding domain. This protein is proposed to bind DNA and be recruited by the YY1 transcription factor to activate certain genes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2013]
Expression: Ubiquitous expression in bone marrow (RPKM 5.6), testis (RPKM 5.5) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 15q15.1

Exon count:: 37

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	15	NC_000015.10 (40978880..41116280, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	15	NC_060939.1 (38784821..38922361, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	15	NC_000015.9 (41271078..41408478, complement)

Chromosome 15 - NC_000015.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

INO80 participates in the pathogenesis of recurrent miscarriage by epigenetically regulating trophoblast migration and invasion.
Title: INO80 participates in the pathogenesis of recurrent miscarriage by epigenetically regulating trophoblast migration and invasion.
CHIP and BAP1 Act in Concert to Regulate INO80 Ubiquitination and Stability for DNA Replication.
Title: CHIP and BAP1 Act in Concert to Regulate INO80 Ubiquitination and Stability for DNA Replication.
Linc-MYH configures INO80 to regulate muscle stem cell numbers and skeletal muscle hypertrophy.
Title: Linc-MYH configures INO80 to regulate muscle stem cell numbers and skeletal muscle hypertrophy.
Resolution of R-loops by INO80 promotes DNA replication and maintains cancer cell proliferation and viability.
Title: Resolution of R-loops by INO80 promotes DNA replication and maintains cancer cell proliferation and viability.
the INO80 complex, including Ino80 and actin-related proteins, is assembled around a single RUVBL1 (Tip49a) and RUVBL2 (Tip49b) AAA+ heterohexamer
Title: Cryo-EM structures of the human INO80 chromatin-remodeling complex.
INO80 chromatin remodeler cooperates with FANCM to mediate DNA interstrand crosslink-induced checkpoint activation and repair
Title: Mammalian INO80 chromatin remodeler cooperates with FANCM to mediate DNA interstrand crosslink-induced checkpoint activation and repair.
LncRNA PTCSC3 was low-expressed in anaplastic thyroid cancer (ATC) tissues and cells. Over-expressed PTCSC3 inhibited the drug resistance of ATC to doxorubicin. PTCSC3 negatively regulated STAT3, and STAT3 promoted expression of INO80. PTCSC3 regulated INO80 through STAT3. PTCSC3 suppressed stem cells properties and drug resistance of ATC to doxorubicin.
Title: LncRNA PTCSC3 affects drug resistance of anaplastic thyroid cancer through STAT3/INO80 pathway.
Here, the authors show that ARP8, a subunit of the INO80 chromatin remodeling complex, is phosphorylated after etoposide treatment. The etoposide-induced phosphorylation of ARP8 is regulated by ATM and ATR, and attenuates its interaction with INO80.
Title: Distinct roles of ATM and ATR in the regulation of ARP8 phosphorylation to prevent chromosome translocations.
Data report a single-molecule level assay for INO80, based on the relative movement of FRET labels on the nucleosome. Results found that while binding wild-type and all tailless nucleosomes with equal affinity, the bound state of INO80 in the presence of ADP is homogenous for wild-type nucleosomes and heterogeneous for all tailless nucleosomes.
Title: Single-molecule nucleosome remodeling by INO80 and effects of histone tails.
human INO80 chromatin remodeling complex is more compositionally heterogenous at its genomic targets than anticipated.
Title: Identification of Two Distinct Classes of the Human INO80 Complex Genome-Wide.

Submit: New GeneRIF Correction See all GeneRIFs (42)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH77825 (e-PCR)
- UniSTS:10259

STS-H80862 (e-PCR)
- UniSTS:15123

WI-18087 (e-PCR)
- UniSTS:16527

RH93731 (e-PCR)
- UniSTS:83868

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP-dependent activity, acting on DNA	IDA Inferred from Direct Assay more info	PubMed
enables ATP-dependent chromatin remodeler activity	IEA Inferred from Electronic Annotation more info
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables actin binding	IEA Inferred from Electronic Annotation more info
enables alpha-tubulin binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in UV-damage excision repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in cellular response to UV	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to ionizing radiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	IDA Inferred from Direct Assay more info	PubMed
involved_in chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in double-strand break repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in double-strand break repair via homologous recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic sister chromatid segregation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of nuclear cell cycle DNA replication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of telomere maintenance in response to DNA damage	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA repair	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA replication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA strand elongation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of G1/S transition of mitotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of chromosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of embryonic development	ISO Inferred from Sequence Orthology more info
involved_in spindle assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in telomere maintenance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Ino80 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Ino80 complex	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in nuclear body	IDA Inferred from Direct Assay more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in spindle	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: chromatin-remodeling ATPase INO80

Names: DNA helicase INO80; DNA helicase-related INO80 complex homolog 1; DNA helicase-related protein INO80; INO80 complex subunit A; homolog of yeast INO80; putative DNA helicase INO80 complex homolog 1

NP_060023.1

EC 3.6.4.12

XP_011519987.1

EC 3.6.4.12

XP_011519988.1

EC 3.6.4.12

XP_047288654.1

EC 3.6.4.12

XP_054234202.1

EC 3.6.4.12

XP_054234203.1

EC 3.6.4.12

XP_054234204.1

EC 3.6.4.12

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_017163.2 RefSeqGene

Range

6499..143899

Download

GenBank, FASTA, Sequence Viewer (Graphics), LRG_1233

mRNA and Protein(s)

NM_017553.3 → NP_060023.1 chromatin-remodeling ATPase INO80

See identical proteins and their annotated locations for NP_060023.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the functional protein.

Source sequence(s)

AB033085, AC020661, AL137280, BC046115, CB155560, DB458576

Consensus CDS

CCDS10071.1

UniProtKB/Swiss-Prot

A6H8X4, Q9NTG6, Q9ULG1

UniProtKB/TrEMBL

A8K2V6

Related

ENSP00000497609.1, ENST00000648947.1

Conserved Domains (3) summary

pfam00176
Location:521 → 822

SNF2_N; SNF2 family N-terminal domain

pfam13892
Location:273 → 402

DBINO; DNA-binding domain

cl26465
Location:1094 → 1252

SNF2_N; SNF2 family N-terminal domain

RNA

NR_104038.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC020661, AC021753

Related

ENST00000558357.6

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000015.10 Reference GRCh38.p14 Primary Assembly

Range

40978880..41116280 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047432698.1 → XP_047288654.1 chromatin-remodeling ATPase INO80 isoform X1

UniProtKB/Swiss-Prot

A6H8X4, Q9NTG6, Q9ULG1
XM_011521686.4 → XP_011519988.1 chromatin-remodeling ATPase INO80 isoform X3

Related

ENST00000558270.2

Conserved Domains (3) summary

PLN03142
Location:16 → 181

PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional

cd18793
Location:440 → 575

SF2_C_SNF; C-terminal helicase domain of the SNF family helicases

cl28899
Location:9 → 96

DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily
XM_011521685.4 → XP_011519987.1 chromatin-remodeling ATPase INO80 isoform X2

UniProtKB/TrEMBL

H0YMN5

Conserved Domains (4) summary

COG0553
Location:348 → 866

HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]

cd18793
Location:1090 → 1171

SF2_C_SNF; C-terminal helicase domain of the SNF family helicases

cd18002
Location:518 → 746

DEXQc_INO80; DEAQ-box helicase domain of INO80

pfam13892
Location:273 → 402

DBINO; DNA-binding domain

RNA

XR_001751322.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

NC_060939.1 Alternate T2T-CHM13v2.0

Range

38784821..38922361 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054378227.1 → XP_054234202.1 chromatin-remodeling ATPase INO80 isoform X1

UniProtKB/Swiss-Prot

A6H8X4, Q9NTG6, Q9ULG1
XM_054378229.1 → XP_054234204.1 chromatin-remodeling ATPase INO80 isoform X3
XM_054378228.1 → XP_054234203.1 chromatin-remodeling ATPase INO80 isoform X2

RNA

XR_008488971.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_032196.3: Suppressed sequence

Description

NM_032196.3: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.