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NCAPD3 non-SMC condensin II complex subunit D3 [ Homo sapiens (human) ]

Gene ID: 23310, updated on 17-Jun-2019

Summary

Official Symbol
NCAPD3provided by HGNC
Official Full Name
non-SMC condensin II complex subunit D3provided by HGNC
Primary source
HGNC:HGNC:28952
See related
Ensembl:ENSG00000151503 MIM:609276
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
CAPD3; hcp-6; CAP-D3; MCPH22; hHCP-6; hCAP-D3
Summary
Condensin complexes I and II play essential roles in mitotic chromosome assembly and segregation. Both condensins contain 2 invariant structural maintenance of chromosome (SMC) subunits, SMC2 (MIM 605576) and SMC4 (MIM 605575), but they contain different sets of non-SMC subunits. NCAPD3 is 1 of 3 non-SMC subunits that define condensin II (Ono et al., 2003 [PubMed 14532007]).[supplied by OMIM, Mar 2008]
Expression
Broad expression in prostate (RPKM 42.0), bone marrow (RPKM 7.1) and 20 other tissues See more
Orthologs

Genomic context

See NCAPD3 in Genome Data Viewer
Location:
11q25
Exon count:
39
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (134152442..134225454, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (134022337..134094426, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene junctional adhesion molecule 3 Neighboring gene PTP4A2 pseudogene 2 Neighboring gene small nucleolar RNA, C/D box 153 Neighboring gene zinc finger protein 628 pseudogene Neighboring gene VPS26, retromer complex component B Neighboring gene thymocyte nuclear protein 1 Neighboring gene acyl-CoA dehydrogenase family member 8

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 FunctionsWhat's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
MICROCEPHALY 22, PRIMARY, AUTOSOMAL RECESSIVE
MedGen: C4693834 OMIM: 617984 GeneReviews: Not available
not available

NHGRI GWAS Catalog

Description
Genetic correlates of brain aging on MRI and cognitive test measures: a genome-wide association and linkage analysis in the Framingham Study.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vpu vpu HIV-1 Vpu is identified to have a physical interaction with non-SMC condensin II complex, subunit D3 (NCAPD3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Cell Cycle, organism-specific biosystem (from REACTOME)
    Cell Cycle, organism-specific biosystem
    Cell Cycle
  • Cell Cycle, Mitotic, organism-specific biosystem (from REACTOME)
    Cell Cycle, Mitotic, organism-specific biosystemThe replication of the genome and the subsequent segregation of chromosomes into daughter cells are controlled by a series of events collectively known as the cell cycle. DNA replication is carried o...
  • Condensation of Prophase Chromosomes, organism-specific biosystem (from REACTOME)
    Condensation of Prophase Chromosomes, organism-specific biosystemIn mitotic prophase, the action of the condensin II complex enables initial chromosome condensation.The condensin II complex subunit NCAPD3 binds monomethylated histone H4 (H4K20me1), thereby associa...
  • M Phase, organism-specific biosystem (from REACTOME)
    M Phase, organism-specific biosystemMitosis, or the M phase, involves nuclear division and cytokinesis, where two identical daughter cells are produced. Mitosis involves prophase, prometaphase, metaphase, anaphase, and telophase. Fin...
  • Mitotic Prophase, organism-specific biosystem (from REACTOME)
    Mitotic Prophase, organism-specific biosystemDuring prophase, the chromatin in the nucleus condenses, and the nucleolus disappears. Centrioles begin moving to the opposite poles or sides of the cell. Some of the fibers that extend from the cen...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ42888, KIAA0056, MGC104671

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
methylated histone binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell division IEA
Inferred from Electronic Annotation
more info
 
chromosome separation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
meiotic chromosome condensation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitotic chromosome condensation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitotic chromosome condensation IDA
Inferred from Direct Assay
more info
PubMed 
mitotic chromosome condensation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
condensed chromosome, centromeric region IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane HDA PubMed 
nuclear condensin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear condensin complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear pericentric heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
condensin-2 complex subunit D3

NCBI Reference Sequences (RefSeq)

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_015261.2NP_056076.1  condensin-2 complex subunit D3

    See identical proteins and their annotated locations for NP_056076.1

    Status: VALIDATED

    Source sequence(s)
    AK025549, AK124878, BC098398, D29954
    Consensus CDS
    CCDS31723.1
    UniProtKB/Swiss-Prot
    P42695
    Related
    ENSP00000433681.2, ENST00000534548.6
    Conserved Domains (2) summary
    sd00044
    Location:542571
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9571120
    Cnd1; non-SMC mitotic condensation complex subunit 1

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    134152442..134225454 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024448406.1XP_024304174.1  condensin-2 complex subunit D3 isoform X1

    Conserved Domains (2) summary
    sd00044
    Location:542571
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9571120
    Cnd1; non-SMC mitotic condensation complex subunit 1
  2. XM_024448407.1XP_024304175.1  condensin-2 complex subunit D3 isoform X1

    Conserved Domains (2) summary
    sd00044
    Location:542571
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9571120
    Cnd1; non-SMC mitotic condensation complex subunit 1
  3. XM_011542719.2XP_011541021.1  condensin-2 complex subunit D3 isoform X2

    Conserved Domains (2) summary
    pfam12717
    Location:816994
    Cnd1; non-SMC mitotic condensation complex subunit 1
    sd00044
    Location:404433
    HEAT; HEAT repeat [structural motif]

RNA

  1. XR_001747803.2 RNA Sequence

    Related
    ENST00000525964.6
  2. XR_947815.3 RNA Sequence

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