rbbp4 retinoblastoma binding protein 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rbbp4provided by ZNC
Official Full Name: retinoblastoma binding protein 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-445
See related: Ensembl:ENSDARG00000029058 AllianceGenome:ZFIN:ZDB-GENE-030131-445
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: rbb4; rbb4-2; zgc:55349; zgc:77854; wu:fb33a09; wu:fb40e10
Summary: Predicted to enable histone binding activity. Predicted to contribute to ATP-dependent activity, acting on DNA. Acts upstream of or within fin regeneration. Predicted to be located in chromosome, telomeric region. Predicted to be part of CAF-1 complex; ESC/E(Z) complex; and NuRD complex. Predicted to be active in nucleus. Is expressed in gonad; muscle; nervous system; and pectoral fin. Orthologous to human RBBP4 (RB binding protein 4, chromatin remodeling factor). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 19

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (30999839..31007318, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (31412526..31420005, complement)

Chromosome 19 - NC_007130.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Rbbp4 loss disrupts neural progenitor cell cycle regulation independent of Rb and leads to Tp53 acetylation and apoptosis.
Title: Rbbp4 loss disrupts neural progenitor cell cycle regulation independent of Rb and leads to Tp53 acetylation and apoptosis.
rbbp4 is required for survival of postmitotic precursors, and hdac1 maintains proliferation of the neural stem cell/progenitor pool.
Title: Epigenetic regulators Rbbp4 and Hdac1 are overexpressed in a zebrafish model of RB1 embryonal brain tumor, and are required for neural progenitor survival and proliferation.

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General gene information

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Markers

AI416022 (e-PCR)
- UniSTS:206631

fk81d03.x1 (e-PCR)
- UniSTS:201565

fb50b04.x1 (e-PCR)
- UniSTS:190630

fc50c11.y1 (e-PCR)
- UniSTS:194025

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
contributes_to ATP-dependent activity, acting on DNA	ISS Inferred from Sequence or Structural Similarity more info
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA replication	IEA Inferred from Electronic Annotation more info
involved_in DNA replication-dependent chromatin assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within fin regeneration	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of CAF-1 complex	ISS Inferred from Sequence or Structural Similarity more info
part_of ESC/E(Z) complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ESC/E(Z) complex	ISS Inferred from Sequence or Structural Similarity more info
part_of NuRD complex	IBA Inferred from Biological aspect of Ancestor more info
part_of NuRD complex	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, telomeric region	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: histone-binding protein RBBP4

Names: RBBP-4

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)

NM_212595.1 → NP_997760.1 histone-binding protein RBBP4

See identical proteins and their annotated locations for NP_997760.1

Status: PROVISIONAL

Source sequence(s)

AY394940

UniProtKB/Swiss-Prot

Q6P3H7, Q6TLG5, Q7ZW28

Related

ENSDARP00000048143.5, ENSDART00000048144.6

Conserved Domains (4) summary

COG2319
Location:162 → 423

WD40; WD40 repeat [General function prediction only]

pfam12265
Location:19 → 87

CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex

sd00039
Location:128 → 175

7WD40; WD40 repeat [structural motif]

cl02567
Location:122 → 403

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 ...