Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Putative histone H2B type 2-D

Gene

HIST2H2BD

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein uncertaini

Functioni

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciZFISH:G66-32668-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative histone H2B type 2-D
Gene namesi
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Unplaced

Organism-specific databases

HGNCiHGNC:20517. HIST2H2BD.

Subcellular locationi

GO - Cellular componenti

  • extracellular exosome Source: UniProtKB
  • nuclear nucleosome Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi337874.

Polymorphism and mutation databases

DMDMi74709219.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002448252 – 164Putative histone H2B type 2-DAdd BLAST163

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylprolineBy similarity1
Modified residuei6N6-acetyllysine; alternate1 Publication1
Modified residuei6N6-crotonyllysine; alternate1 Publication1
Cross-linki6Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei12N6-acetyllysine; alternateBy similarity1
Modified residuei12N6-crotonyllysine; alternate1 Publication1
Modified residuei13N6-acetyllysine; alternate1 Publication1
Modified residuei13N6-crotonyllysine; alternate1 Publication1
Modified residuei15Phosphoserine; by STK4/MST11 Publication1
Modified residuei16N6-acetyllysine; alternate1 Publication1
Modified residuei16N6-crotonyllysine; alternate1 Publication1
Modified residuei17N6-acetyllysine; alternateBy similarity1
Modified residuei17N6-crotonyllysine; alternate1 Publication1
Modified residuei21N6-acetyllysine; alternate1 Publication1
Modified residuei21N6-crotonyllysine; alternate1 Publication1
Modified residuei24N6-acetyllysine; alternateBy similarity1
Modified residuei24N6-crotonyllysine; alternate1 Publication1
Modified residuei35N6-crotonyllysine; alternate1 Publication1
Cross-linki35Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternateBy similarity
Modified residuei37Phosphoserine; by AMPKBy similarity1
Modified residuei47N6-methyllysineBy similarity1
Modified residuei58N6,N6-dimethyllysineBy similarity1
Modified residuei80Dimethylated arginineBy similarity1
Modified residuei86N6,N6,N6-trimethyllysine; alternateBy similarity1
Modified residuei86N6-acetyllysine; alternateBy similarity1
Modified residuei87Omega-N-methylarginineBy similarity1
Modified residuei93Omega-N-methylarginineBy similarity1

Post-translational modificationi

Phosphorylation at Ser-37 (H2BS36ph) by AMPK in response to stress promotes transcription (By similarity). Phosphorylated on Ser-15 (H2BS14ph) by STK4/MST1 during apoptosis; which facilitates apoptotic chromatin condensation. Also phosphorylated on Ser-15 in response to DNA double strand breaks (DSBs), and in correlation with somatic hypermutation and immunoglobulin class-switch recombination.By similarity1 Publication
Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with post-meiotically activated genes on autosomes.1 Publication

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ6DRA6.
MaxQBiQ6DRA6.
PRIDEiQ6DRA6.

PTM databases

iPTMnetiQ6DRA6.
PhosphoSitePlusiQ6DRA6.
SwissPalmiQ6DRA6.

Expressioni

Organism-specific databases

HPAiHPA042205.
HPA043013.
HPA048671.

Interactioni

Subunit structurei

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.

Structurei

3D structure databases

ProteinModelPortaliQ6DRA6.
SMRiQ6DRA6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

HOVERGENiHBG081588.
InParanoidiQ6DRA6.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000558. Histone_H2B.
[Graphical view]
PANTHERiPTHR23428. PTHR23428. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00621. HISTONEH2B.
SMARTiSM00427. H2B. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q6DRA6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEPAKFAPA PKKGSKKAVT KAQKKDGKKR KRSRKESYSI YVYKVLKRVH
60 70 80 90 100
PDTGIWCKAM GIMNSFLNDI FERIAGEASR LAHYNKRSTI TSRRSRRPCA
110 120 130 140 150
CCCPASWPST PCPRAPRRSP STPAPSESLP GPGARSLPPS LPPRVAGCFV
160
SKGSFQGHLT PLVK
Length:164
Mass (Da):18,018
Last modified:January 23, 2007 - v3
Checksum:i1361A7840661B6A7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY131978 Genomic DNA. No translation available.
AY648853 Genomic DNA. Translation: AAT68256.1.
UniGeneiHs.595570.
Hs.666643.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY131978 Genomic DNA. No translation available.
AY648853 Genomic DNA. Translation: AAT68256.1.
UniGeneiHs.595570.
Hs.666643.

3D structure databases

ProteinModelPortaliQ6DRA6.
SMRiQ6DRA6.
ModBaseiSearch...
MobiDBiSearch...

PTM databases

iPTMnetiQ6DRA6.
PhosphoSitePlusiQ6DRA6.
SwissPalmiQ6DRA6.

Polymorphism and mutation databases

DMDMi74709219.

Proteomic databases

EPDiQ6DRA6.
MaxQBiQ6DRA6.
PRIDEiQ6DRA6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Organism-specific databases

DisGeNETi337874.
GeneCardsiHIST2H2BD.
HGNCiHGNC:20517. HIST2H2BD.
HPAiHPA042205.
HPA043013.
HPA048671.
neXtProtiNX_Q6DRA6.
GenAtlasiSearch...

Phylogenomic databases

HOVERGENiHBG081588.
InParanoidiQ6DRA6.

Enzyme and pathway databases

BioCyciZFISH:G66-32668-MONOMER.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000558. Histone_H2B.
[Graphical view]
PANTHERiPTHR23428. PTHR23428. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00621. HISTONEH2B.
SMARTiSM00427. H2B. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiH2B2D_HUMAN
AccessioniPrimary (citable) accession number: Q6DRA6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 11, 2006
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 89 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

The mouse orthologous protein seems not to exist.

Caution

Could be the product of a pseudogene. In contrast to other H2B histones, it does not contain the conserved residue in C-terminus that is the target of monoubiquitination.Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.