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H2BC4 H2B clustered histone 4 [ Homo sapiens (human) ]

Gene ID: 8347, updated on 7-Jun-2020

Summary

Official Symbol
H2BC4provided by HGNC
Official Full Name
H2B clustered histone 4provided by HGNC
Primary source
HGNC:HGNC:4757
See related
Ensembl:ENSG00000180596 MIM:602847
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
H2B.1; H2B/l; H2BC6; H2BC7; H2BC8; H2BFL; H2BC10; HIST1H2BC; dJ221C16.3
Summary
Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. The protein has antibacterial and antifungal antimicrobial activity. The main transcript variant of this gene is intronless and encodes a replication-dependent histone that is a member of the histone H2B family. This transcript variant lacks a polyA tail but instead contains a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6. [provided by RefSeq, Apr 2020]
Orthologs

Genomic context

See H2BC4 in Genome Data Viewer
Location:
6p22.2
Exon count:
2
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (26113170..26123926, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (26113389..26124266, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H4 clustered histone 3 Neighboring gene H1.6 linker histone, cluster member Neighboring gene H2A clustered histone 6 Neighboring gene H1.4 linker histone, cluster member

Genomic regions, transcripts, and products

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of histone cluster 1, H2bc (HIST1H2BC) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, histone cluster 1, H2bc, is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
Tat tat HIV-1 Tat peptides bind core histones H2A, H2B, H3 and H4, and Tat protein recruits histone acetyltransferases to the HIV-1 LTR promoter leading to acetylation of histones H3 and H4, derepressing chromatin structure and increasing NFkappaB responsiveness 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

Homology

Clone Names

  • MGC104246

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA binding NAS
Non-traceable Author Statement
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
antibacterial humoral response IDA
Inferred from Direct Assay
more info
PubMed 
antimicrobial humoral immune response mediated by antimicrobial peptide IDA
Inferred from Direct Assay
more info
PubMed 
defense response to Gram-positive bacterium IDA
Inferred from Direct Assay
more info
PubMed 
innate immune response in mucosa IDA
Inferred from Direct Assay
more info
PubMed 
nucleosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleosome assembly NAS
Non-traceable Author Statement
more info
PubMed 
protein ubiquitination TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
extracellular exosome HDA PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleosome NAS
Non-traceable Author Statement
more info
PubMed 
nucleus HDA PubMed 

General protein information

Preferred Names
histone H2B type 1-C/E/F/G/I
Names
H2B histone family, member L
histone 1, H2bc
histone H2B.1 A
histone H2B.l
histone cluster 1 H2B family member c
histone cluster 1, H2bc

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_001381989.1NP_001368918.1  histone H2B type 1-C/E/F/G/I

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    U91328
  2. NM_003526.3NP_003517.2  histone H2B type 1-C/E/F/G/I

    See identical proteins and their annotated locations for NP_003517.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    U91328
    Consensus CDS
    CCDS4584.1
    UniProtKB/Swiss-Prot
    P62807
    UniProtKB/TrEMBL
    B2R4S9
    Related
    ENSP00000380180.1, ENST00000396984.1
    Conserved Domains (1) summary
    smart00427
    Location:28124
    H2B; Histone H2B

RefSeqs of Annotated Genomes: Homo sapiens Updated 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_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    26113170..26123926 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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