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    NCAPD2 non-SMC condensin I complex subunit D2 [ Homo sapiens (human) ]

    Gene ID: 9918, updated on 7-Jan-2024

    Summary

    Official Symbol
    NCAPD2provided by HGNC
    Official Full Name
    non-SMC condensin I complex subunit D2provided by HGNC
    Primary source
    HGNC:HGNC:24305
    See related
    Ensembl:ENSG00000010292 MIM:615638; AllianceGenome:HGNC:24305
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CNAP1; CAP-D2; MCPH21; hCAP-D2
    Summary
    Enables histone binding activity. Involved in mitotic chromosome condensation. Located in condensed chromosome; cytosol; and nucleoplasm. Part of condensin complex. Colocalizes with cytoplasm and nuclear chromosome. Implicated in primary autosomal recessive microcephaly. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in lymph node (RPKM 20.3), bone marrow (RPKM 14.5) and 24 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See NCAPD2 in Genome Data Viewer
    Location:
    12p13.31
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (6494102..6531955)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (6504453..6542311)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (6603268..6641121)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene plakophilin 2 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5862 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr12:6602863-6603460 Neighboring gene mitochondrial ribosomal protein L51 Neighboring gene small Cajal body-specific RNA 10 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6641915-6642688 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6642689-6643462 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6643463-6644236 Neighboring gene GAPDH divergent transcript Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:6645785-6646558 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5864 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5865 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5866 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase Neighboring gene intermediate filament family orphan 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6658582-6659082 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6659083-6659583 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6660263-6660762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6661035-6661552 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6663184-6663684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:6663685-6664185 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4169 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4170

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat Interaction of HIV-1 Tat with CAPD2 in T-cells is identified by a proteomic strategy based on affinity chromatography coupled with mass spectrometry PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA0159

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in meiotic chromosome condensation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mitotic chromosome condensation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mitotic chromosome condensation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mitotic chromosome condensation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mitotic chromosome condensation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of chromosome condensation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of chromosome separation ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in condensed chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in condensed chromosome, centromeric region IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in condensed nuclear chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    part_of condensin complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of condensin complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    colocalizes_with cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in membrane HDA PubMed 
    colocalizes_with nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    condensin complex subunit 1
    Names
    XCAP-D2 homolog
    chromosome condensation-related SMC-associated protein 1
    chromosome-associated protein D2

    NCBI Reference Sequences (RefSeq)

    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.

    mRNA and Protein(s)

    1. NM_014865.4NP_055680.3  condensin complex subunit 1

      See identical proteins and their annotated locations for NP_055680.3

      Status: VALIDATED

      Source sequence(s)
      AC006064, AK022511, AK128354, AL548223, BC028182, CN307514, D63880
      Consensus CDS
      CCDS8548.1
      UniProtKB/Swiss-Prot
      D3DUR4, Q15021, Q8N6U3
      UniProtKB/TrEMBL
      B3KMS0
      Related
      ENSP00000325017.5, ENST00000315579.10
      Conserved Domains (3) summary
      COG5098
      Location:601245
      COG5098; Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics / Cell division and chromosome partitioning]
      pfam12717
      Location:10691234
      Cnd1; non-SMC mitotic condensation complex subunit 1
      pfam12922
      Location:75240
      Cnd1_N; non-SMC mitotic condensation complex subunit 1, N-term

    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

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      6494102..6531955
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      6504453..6542311
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)