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RBBP4 RB binding protein 4, chromatin remodeling factor [ Homo sapiens (human) ]

Gene ID: 5928, updated on 20-Apr-2019

Summary

Official Symbol
RBBP4provided by HGNC
Official Full Name
RB binding protein 4, chromatin remodeling factorprovided by HGNC
Primary source
HGNC:HGNC:9887
See related
Ensembl:ENSG00000162521 MIM:602923
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
NURF55; RBAP48; lin-53
Summary
This gene encodes a ubiquitously expressed nuclear protein which belongs to a highly conserved subfamily of WD-repeat proteins. It is present in protein complexes involved in histone acetylation and chromatin assembly. It is part of the Mi-2 complex which has been implicated in chromatin remodeling and transcriptional repression associated with histone deacetylation. This encoded protein is also part of co-repressor complexes, which is an integral component of transcriptional silencing. It is found among several cellular proteins that bind directly to retinoblastoma protein to regulate cell proliferation. This protein also seems to be involved in transcriptional repression of E2F-responsive genes. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2008]
Expression
Ubiquitous expression in testis (RPKM 27.2), lymph node (RPKM 20.0) and 25 other tissues See more
Orthologs

Genomic context

See RBBP4 in Genome Data Viewer
Location:
1p35.1
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (32651148..32686211)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (33116749..33151812)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723870 Neighboring gene zinc finger and BTB domain containing 8 opposite strand Neighboring gene syncoilin, intermediate filament protein Neighboring gene KIAA1522 Neighboring gene tyrosyl-tRNA synthetase Neighboring gene S100P binding protein

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat The SIN3/HDAC complex, composed of SIN3A, SAP30, SAP18, HDAC-1 AND -2 and RbAp46/48 ,except SAP30, interacts with HIV-1 Tat in Jurkat cell PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
ATP-dependent chromatin remodeling HDA PubMed 
CENP-A containing nucleosome assembly TAS
Traceable Author Statement
more info
 
DNA replication IEA
Inferred from Electronic Annotation
more info
 
DNA replication-dependent nucleosome assembly IDA
Inferred from Direct Assay
more info
PubMed 
DNA replication-independent nucleosome assembly IDA
Inferred from Direct Assay
more info
PubMed 
cell cycle IEA
Inferred from Electronic Annotation
more info
 
chromatin assembly IDA
Inferred from Direct Assay
more info
PubMed 
chromatin remodeling IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of G0 to G1 transition TAS
Traceable Author Statement
more info
 
negative regulation of cell proliferation TAS
Traceable Author Statement
more info
PubMed 
negative regulation of gene expression, epigenetic TAS
Traceable Author Statement
more info
 
regulation of cell cycle TAS
Traceable Author Statement
more info
 
regulation of signal transduction by p53 class mediator TAS
Traceable Author Statement
more info
 
response to growth hormone IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
CAF-1 complex IDA
Inferred from Direct Assay
more info
PubMed 
ESC/E(Z) complex IDA
Inferred from Direct Assay
more info
PubMed 
NURF complex IDA
Inferred from Direct Assay
more info
PubMed 
NuRD complex IDA
Inferred from Direct Assay
more info
PubMed 
NuRD complex NAS
Non-traceable Author Statement
more info
PubMed 
Sin3 complex NAS
Non-traceable Author Statement
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
nuclear chromatin HDA PubMed 
nuclear chromatin IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
protein-containing complex HDA PubMed 
protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
histone-binding protein RBBP4
Names
CAF-1 subunit C
CAF-I 48 kDa subunit
CAF-I p48
MSI1 protein homolog
RBBP-4
chromatin assembly factor 1 subunit C
chromatin assembly factor I p48 subunit
chromatin assembly factor/CAF-1 p48 subunit
nucleosome-remodeling factor subunit RBAP48
retinoblastoma-binding protein 4
retinoblastoma-binding protein p48

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_001135255.1NP_001128727.1  histone-binding protein RBBP4 isoform b

    See identical proteins and their annotated locations for NP_001128727.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is one aa shorter compared to isoform a.
    Source sequence(s)
    AC114489, AK222779, DC315298
    Consensus CDS
    CCDS44105.1
    UniProtKB/Swiss-Prot
    Q09028
    Related
    ENSP00000398242.3, ENST00000414241.7
    Conserved Domains (3) summary
    sd00039
    Location:127174
    7WD40; WD40 repeat [structural motif]
    pfam12265
    Location:1887
    CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
    cl25539
    Location:121402
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
  2. NM_001135256.1NP_001128728.1  histone-binding protein RBBP4 isoform c

    See identical proteins and their annotated locations for NP_001128728.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    AC114489, AK222779, AK299251
    Consensus CDS
    CCDS44106.1
    UniProtKB/Swiss-Prot
    Q09028
    Related
    ENSP00000396057.2, ENST00000458695.6
    Conserved Domains (3) summary
    sd00039
    Location:93140
    7WD40; WD40 repeat [structural motif]
    pfam12265
    Location:153
    CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
    cl25539
    Location:87368
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
  3. NM_005610.3NP_005601.1  histone-binding protein RBBP4 isoform a

    See identical proteins and their annotated locations for NP_005601.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC114489, AK312571, DC315298
    Consensus CDS
    CCDS366.1
    UniProtKB/Swiss-Prot
    Q09028
    Related
    ENSP00000362592.4, ENST00000373493.10
    Conserved Domains (3) summary
    sd00039
    Location:128175
    7WD40; WD40 repeat [structural motif]
    pfam12265
    Location:1988
    CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
    cl25539
    Location:122403
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

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.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    32651148..32686211
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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