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

Gene ID: 54617, updated on 14-Nov-2024

Summary

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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
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Genomic context

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See INO80 in Genome Data Viewer
Location:
15q15.1
Exon count:
37
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (40978880..41116280, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (38784821..38922361, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (41271078..41408478, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41247897-41248447 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41249950-41250486 Neighboring gene uncharacterized LOC105370789 Neighboring gene NANOG hESC enhancer GRCh37_chr15:41260291-41260942 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:41268087-41269286 Neighboring gene uncharacterized LOC124903476 Neighboring gene ChaC glutathione specific gamma-glutamylcyclotransferase 1 Neighboring gene uncharacterized LOC105376713 Neighboring gene INO80 antisense RNA 1 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr15:41323708-41324208 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr15:41324209-41324709 Neighboring gene MPRA-validated peak2303 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:41407340-41408120 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:41408121-41408900 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:41409682-41410461 Neighboring gene CYCS pseudogene 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:41443644-41444144 Neighboring gene CIBAR1 pseudogene 1 Neighboring gene NANOG hESC enhancer GRCh37_chr15:41472354-41472904 Neighboring gene RNA, 7SL, cytoplasmic 497, pseudogene Neighboring gene exonuclease 3'-5' domain containing 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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?
  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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.
  7. 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.
  8. 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.
  9. 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.
  10. 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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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)

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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Markers

Homology

Clone Names

  • KIAA1259

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 H2AZ histone chaperone activity IEA
Inferred from Electronic Annotation
more info
  
enables ATP-dependent H3-H4 histone complex chaperone activity IEA
Inferred from Electronic Annotation
more info
  
enables ATP-dependent activity, acting on DNA IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA clamp loader activity IEA
Inferred from Electronic Annotation
more info
  
enables actin binding IEA
Inferred from Electronic Annotation
more info
  
enables alpha-tubulin binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables chromatin extrusion motor activity IEA
Inferred from Electronic Annotation
more info
  
enables cohesin loader activity IEA
Inferred from Electronic Annotation
more info
  
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 looping IEA
Inferred from Electronic Annotation
more info
  
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
XP_011519987.1
XP_011519988.1
XP_047288654.1
XP_054234202.1
XP_054234203.1
XP_054234204.1

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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

  1. NG_017163.2 RefSeqGene

    Range
    6499..143899
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1233

mRNA and Protein(s)

  1. 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

  1. 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_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    40978880..41116280 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    UniProtKB/Swiss-Prot
    A6H8X4, Q9NTG6, Q9ULG1

  2. 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

  3. 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

  1. XR_001751322.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    38784821..38922361 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    UniProtKB/Swiss-Prot
    A6H8X4, Q9NTG6, Q9ULG1

  2. XM_054378229.1 → XP_054234204.1  chromatin-remodeling ATPase INO80 isoform X3

  3. XM_054378228.1 → XP_054234203.1  chromatin-remodeling ATPase INO80 isoform X2

RNA

  1. XR_008488971.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032196.3: Suppressed sequence

    Description
    NM_032196.3: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9ULG1.2 GenPept UniProtKB/Swiss-Prot:Q9ULG1

Gene LinkOut

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