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Protein

Histone H2B type 2-F

Gene

HIST2H2BF

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

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

  • DNA binding Source: GO_Central
  • protein heterodimerization activity Source: InterPro

GO - Biological processi

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-3214815 HDACs deacetylate histones
R-HSA-3214847 HATs acetylate histones
R-HSA-5689880 Ub-specific processing proteases

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2B type 2-F
Gene namesi
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000203814.6
HGNCiHGNC:24700 HIST2H2BF
neXtProtiNX_Q5QNW6

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000203814
PharmGKBiPA145148722

Polymorphism and mutation databases

BioMutaiHIST2H2BF
DMDMi74743113

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002448262 – 126Histone H2B type 2-FAdd BLAST125

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylprolineBy similarity1
Modified residuei6N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei6N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei6N6-acetyllysine; alternate1 Publication1
Modified residuei6N6-butyryllysine; alternate1 Publication1
Modified residuei6N6-crotonyllysine; alternate1 Publication1
Cross-linki6Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei12N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei12N6-acetyllysine; alternateBy similarity1
Modified residuei12N6-crotonyllysine; alternate1 Publication1
Modified residuei13N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei13N6-acetyllysine; alternate1 Publication1
Modified residuei13N6-crotonyllysine; alternate1 Publication1
Modified residuei15Phosphoserine; by STK4/MST11 Publication1
Modified residuei16N6-acetyllysine; alternateCombined sources1 Publication1
Modified residuei16N6-crotonyllysine; alternate1 Publication1
Modified residuei17N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei17N6-acetyllysine; alternateCombined sources1
Modified residuei17N6-crotonyllysine; alternate1 Publication1
Modified residuei21N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei21N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei21N6-acetyllysine; alternateCombined sources1 Publication1
Modified residuei21N6-butyryllysine; alternate1 Publication1
Modified residuei21N6-crotonyllysine; alternate1 Publication1
Cross-linki21Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources
Modified residuei24N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei24N6-acetyllysine; alternateBy similarity1
Modified residuei24N6-crotonyllysine; alternate1 Publication1
Modified residuei25N6-(2-hydroxyisobutyryl)lysine1 Publication1
Modified residuei35N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei35N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei35N6-crotonyllysine; alternate1 Publication1
Modified residuei35N6-succinyllysine; alternate1 Publication1
Cross-linki35Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate1 Publication
Modified residuei37Phosphoserine; by AMPKBy similarity1
Modified residuei44N6-(2-hydroxyisobutyryl)lysine1 Publication1
Modified residuei47N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei47N6-methyllysine; alternateBy similarity1
Modified residuei58N6,N6-dimethyllysine; alternateBy similarity1
Modified residuei58N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei80Dimethylated arginineBy similarity1
Modified residuei86N6,N6,N6-trimethyllysine; alternateBy similarity1
Modified residuei86N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei86N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei86N6-acetyllysine; alternateBy similarity1
Modified residuei87Omega-N-methylarginineBy similarity1
Modified residuei93Omega-N-methylarginineBy similarity1
Modified residuei109N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei109N6-methyllysine; alternateBy similarity1
Glycosylationi113O-linked (GlcNAc) serineBy similarity1
Modified residuei116PhosphothreonineBy similarity1
Modified residuei117N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei117N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei117N6-malonyllysine; alternate1 Publication1
Modified residuei117N6-methylated lysine; alternateBy similarity1
Modified residuei117N6-succinyllysine; alternate1 Publication1
Modified residuei121N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei121N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei121N6-succinyllysine; alternate1 Publication1
Cross-linki121Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate2 Publications

Post-translational modificationi

Monoubiquitination at Lys-35 (H2BK34Ub) by the MSL1/MSL2 dimer is required for histone H3 'Lys-4' (H3K4me) and 'Lys-79' (H3K79me) methylation and transcription activation at specific gene loci, such as HOXA9 and MEIS1 loci. Similarly, monoubiquitination at Lys-121 (H2BK120Ub) by the RNF20/40 complex gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation. It also functions cooperatively with the FACT dimer to stimulate elongation by RNA polymerase II. H2BK120Ub also acts as a regulator of mRNA splicing: deubiquitination by USP49 is required for efficient cotranscriptional splicing of a large set of exons.
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
GlcNAcylation at Ser-113 promotes monoubiquitination of Lys-121. It fluctuates in response to extracellular glucose, and associates with transcribed genes (By similarity).By similarity
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, Glycoprotein, Hydroxylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiQ5QNW6
PaxDbiQ5QNW6
PeptideAtlasiQ5QNW6
PRIDEiQ5QNW6
ProteomicsDBi63624
63625 [Q5QNW6-2]
TopDownProteomicsiQ5QNW6-1 [Q5QNW6-1]
Q5QNW6-2 [Q5QNW6-2]

PTM databases

iPTMnetiQ5QNW6
PhosphoSitePlusiQ5QNW6
SwissPalmiQ5QNW6

Expressioni

Gene expression databases

BgeeiENSG00000203814 Expressed in 87 organ(s), highest expression level in stomach
CleanExiHS_HIST2H2BF

Organism-specific databases

HPAiCAB007814
HPA042205
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.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi136811, 13 interactors
IntActiQ5QNW6, 7 interactors
MINTiQ5QNW6
STRINGi9606.ENSP00000445831

Structurei

3D structure databases

ProteinModelPortaliQ5QNW6
SMRiQ5QNW6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

eggNOGiKOG1744 Eukaryota
ENOG4111NV5 LUCA
GeneTreeiENSGT00760000118976
HOGENOMiHOG000231213
HOVERGENiHBG007774
InParanoidiQ5QNW6
KOiK11252
OMAiASYNHRS
OrthoDBiEOG091G0XGD
PhylomeDBiQ5QNW6
TreeFamiTF300212

Family and domain databases

Gene3Di1.10.20.10, 1 hit
InterProiView protein in InterPro
IPR009072 Histone-fold
IPR007125 Histone_H2A/H2B/H3
IPR000558 Histone_H2B
PANTHERiPTHR23428 PTHR23428, 1 hit
PfamiView protein in Pfam
PF00125 Histone, 1 hit
PRINTSiPR00621 HISTONEH2B
SMARTiView protein in SMART
SM00427 H2B, 1 hit
SUPFAMiSSF47113 SSF47113, 1 hit
PROSITEiView protein in PROSITE
PS00357 HISTONE_H2B, 1 hit

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q5QNW6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MPDPAKSAPA PKKGSKKAVT KVQKKDGKKR KRSRKESYSV YVYKVLKQVH
60 70 80 90 100
PDTGISSKAM GIMNSFVNDI FERIAGEASR LAHYNKRSTI TSREIQTAVR
110 120
LLLPGELAKH AVSEGTKAVT KYTSSK
Length:126
Mass (Da):13,920
Last modified:January 23, 2007 - v3
Checksum:iE951DF3D7E97C106
GO
Isoform 2 (identifier: Q5QNW6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     126-126: K → KLIGPILWK

Note: No experimental confirmation available.
Show »
Length:134
Mass (Da):14,841
Checksum:i6F656197FE8FD5E2
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_043431126K → KLIGPILWK in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK289664 mRNA Translation: BAF82353.1
AK296916 mRNA Translation: BAG59471.1
AL591493 Genomic DNA Translation: CAI12558.1
BC110793 mRNA Translation: AAI10794.1
CCDSiCCDS30846.1 [Q5QNW6-1]
CCDS53359.1 [Q5QNW6-2]
RefSeqiNP_001019770.1, NM_001024599.4 [Q5QNW6-1]
NP_001154806.1, NM_001161334.1 [Q5QNW6-2]
UniGeneiHs.632451

Genome annotation databases

EnsembliENST00000369167; ENSP00000358164; ENSG00000203814 [Q5QNW6-1]
ENST00000545683; ENSP00000445831; ENSG00000203814 [Q5QNW6-2]
GeneIDi440689
KEGGihsa:440689
UCSCiuc001esr.5 human [Q5QNW6-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK289664 mRNA Translation: BAF82353.1
AK296916 mRNA Translation: BAG59471.1
AL591493 Genomic DNA Translation: CAI12558.1
BC110793 mRNA Translation: AAI10794.1
CCDSiCCDS30846.1 [Q5QNW6-1]
CCDS53359.1 [Q5QNW6-2]
RefSeqiNP_001019770.1, NM_001024599.4 [Q5QNW6-1]
NP_001154806.1, NM_001161334.1 [Q5QNW6-2]
UniGeneiHs.632451

3D structure databases

ProteinModelPortaliQ5QNW6
SMRiQ5QNW6
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi136811, 13 interactors
IntActiQ5QNW6, 7 interactors
MINTiQ5QNW6
STRINGi9606.ENSP00000445831

PTM databases

iPTMnetiQ5QNW6
PhosphoSitePlusiQ5QNW6
SwissPalmiQ5QNW6

Polymorphism and mutation databases

BioMutaiHIST2H2BF
DMDMi74743113

Proteomic databases

MaxQBiQ5QNW6
PaxDbiQ5QNW6
PeptideAtlasiQ5QNW6
PRIDEiQ5QNW6
ProteomicsDBi63624
63625 [Q5QNW6-2]
TopDownProteomicsiQ5QNW6-1 [Q5QNW6-1]
Q5QNW6-2 [Q5QNW6-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000369167; ENSP00000358164; ENSG00000203814 [Q5QNW6-1]
ENST00000545683; ENSP00000445831; ENSG00000203814 [Q5QNW6-2]
GeneIDi440689
KEGGihsa:440689
UCSCiuc001esr.5 human [Q5QNW6-1]

Organism-specific databases

CTDi440689
EuPathDBiHostDB:ENSG00000203814.6
GeneCardsiHIST2H2BF
HGNCiHGNC:24700 HIST2H2BF
HPAiCAB007814
HPA042205
HPA043013
HPA048671
neXtProtiNX_Q5QNW6
OpenTargetsiENSG00000203814
PharmGKBiPA145148722
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1744 Eukaryota
ENOG4111NV5 LUCA
GeneTreeiENSGT00760000118976
HOGENOMiHOG000231213
HOVERGENiHBG007774
InParanoidiQ5QNW6
KOiK11252
OMAiASYNHRS
OrthoDBiEOG091G0XGD
PhylomeDBiQ5QNW6
TreeFamiTF300212

Enzyme and pathway databases

ReactomeiR-HSA-3214815 HDACs deacetylate histones
R-HSA-3214847 HATs acetylate histones
R-HSA-5689880 Ub-specific processing proteases

Miscellaneous databases

ChiTaRSiHIST2H2BF human
GeneWikiiHIST2H2BF
GenomeRNAii440689
PROiPR:Q5QNW6

Gene expression databases

BgeeiENSG00000203814 Expressed in 87 organ(s), highest expression level in stomach
CleanExiHS_HIST2H2BF

Family and domain databases

Gene3Di1.10.20.10, 1 hit
InterProiView protein in InterPro
IPR009072 Histone-fold
IPR007125 Histone_H2A/H2B/H3
IPR000558 Histone_H2B
PANTHERiPTHR23428 PTHR23428, 1 hit
PfamiView protein in Pfam
PF00125 Histone, 1 hit
PRINTSiPR00621 HISTONEH2B
SMARTiView protein in SMART
SM00427 H2B, 1 hit
SUPFAMiSSF47113 SSF47113, 1 hit
PROSITEiView protein in PROSITE
PS00357 HISTONE_H2B, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiH2B2F_HUMAN
AccessioniPrimary (citable) accession number: Q5QNW6
Secondary accession number(s): A8K0U9, B4DLA9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 11, 2006
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 128 of the entry and version 3 of the sequence. See 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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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