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    Atad2b ATPase family, AAA domain containing 2B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500625, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Atad2bprovided by RGD
    Official Full Name
    ATPase family, AAA domain containing 2Bprovided by RGD
    Primary source
    RGD:1566199
    See related
    EnsemblRapid:ENSRNOG00000058973 AllianceGenome:RGD:1566199
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable ATP hydrolysis activity; chromatin binding activity; and lysine-acetylated histone binding activity. Predicted to be involved in nucleosome assembly; nucleosome disassembly; and transcription initiation-coupled chromatin remodeling. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human ATAD2B (ATPase family AAA domain containing 2B). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Thymus (RPKM 119.9), Spleen (RPKM 112.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Atad2b in Genome Data Viewer
    Location:
    6q14
    Exon count:
    33
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (33646075..33789532)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (27914546..28070103)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (28998080..29066850)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene MFSD2 lysolipid transporter B, sphingolipid Neighboring gene UBX domain protein 2A Neighboring gene uncharacterized LOC134479334 Neighboring gene kelch-like family member 29 Neighboring gene uncharacterized LOC120103500

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Nascent chromatin capture proteomics determines chromatin dynamics during DNA replication and identifies unknown fork components. Alabert C, et al. Nat Cell Biol, 2014 Mar. PMID 24561620, Free PMC Article
    2. Histone recognition and large-scale structural analysis of the human bromodomain family. Filippakopoulos P, et al. Cell, 2012 Mar 30. PMID 22464331, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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 chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables lysine-acetylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in nucleosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nucleosome disassembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ATPase family AAA domain-containing protein 2B
    Names
    two AAA domain containing protein

    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.

    mRNA and Protein(s)

    1. NM_001427483.1 → NP_001414412.1  ATPase family AAA domain-containing protein 2B

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A096MJU1
      Related
      ENSRNOP00000073823.2, ENSRNOT00000084560.3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      33646075..33789532
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262289.1 → XP_063118359.1  ATPase family AAA domain-containing protein 2B isoform X6

    2. XM_039113113.2 → XP_038969041.1  ATPase family AAA domain-containing protein 2B isoform X1

      UniProtKB/TrEMBL
      A6HAK0
      Related
      ENSRNOP00000070114.3, ENSRNOT00000079077.3
      Conserved Domains (3) summary
      cd05528
      Location:956 → 1067
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:416 → 904
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:398 → 567
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    3. XM_039113114.2 → XP_038969042.1  ATPase family AAA domain-containing protein 2B isoform X2

      UniProtKB/TrEMBL
      A6HAK0
      Conserved Domains (3) summary
      cd05528
      Location:956 → 1067
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:416 → 904
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:398 → 567
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    4. XM_039113115.2 → XP_038969043.1  ATPase family AAA domain-containing protein 2B isoform X3

      UniProtKB/TrEMBL
      A6HAK0
      Conserved Domains (3) summary
      cd05528
      Location:956 → 1062
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:416 → 904
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:398 → 567
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    5. XM_039113121.2 → XP_038969049.1  ATPase family AAA domain-containing protein 2B isoform X8

      Conserved Domains (2) summary
      pfam17862
      Location:592 → 632
      AAA_lid_3; AAA+ lid domain
      cd19517
      Location:398 → 567
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    6. XM_039113117.2 → XP_038969045.1  ATPase family AAA domain-containing protein 2B isoform X5

      UniProtKB/TrEMBL
      A6HAK0
      Conserved Domains (3) summary
      cd05528
      Location:888 → 999
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:348 → 836
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:330 → 499
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    7. XM_039113120.2 → XP_038969048.1  ATPase family AAA domain-containing protein 2B isoform X7

      UniProtKB/TrEMBL
      A6HAK0
      Conserved Domains (3) summary
      cd05528
      Location:797 → 908
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:257 → 745
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:239 → 408
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    8. XM_063262288.1 → XP_063118358.1  ATPase family AAA domain-containing protein 2B isoform X4

    9. XM_039113116.2 → XP_038969044.1  ATPase family AAA domain-containing protein 2B isoform X4

      UniProtKB/TrEMBL
      A6HAK0
      Conserved Domains (3) summary
      cd05528
      Location:898 → 1009
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...
      COG0464
      Location:358 → 846
      SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
      cd19517
      Location:340 → 509
      RecA-like_Yta7-like; ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains

    10. XM_039113122.2 → XP_038969050.1  ATPase family AAA domain-containing protein 2B isoform X9

      UniProtKB/TrEMBL
      A0A0G2JX30
      Conserved Domains (1) summary
      cd05528
      Location:128 → 239
      Bromo_AAA; Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this ...

    RNA

    1. XR_005505748.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001025151.1: Suppressed sequence

      Description
      NM_001025151.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: ATAD2B (GeneID:54454).
    Nucleotide Protein Strain
    Heading Accession and Version

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