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Protein

Histone H2B type 1-A

Gene

HIST1H2BA

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

Functioni

Variant histone specifically required to direct the transformation of dissociating nucleosomes to protamine in male germ cells (By similarity). Entirely replaces classical histone H2B prior nucleosome to protamine transition and probably acts as a nucleosome dissociating factor that creates a more dynamic chromatin, facilitating the large-scale exchange of histones (By similarity). Core component of nucleosome (By similarity). Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template (By similarity). Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability (By similarity). DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling (By similarity). Also found in fat cells, its function and the presence of post-translational modifications specific to such cells are still unclear (PubMed:21249133).By similarity1 Publication

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-1221632 Meiotic synapsis
R-HSA-171306 Packaging Of Telomere Ends
R-HSA-1912408 Pre-NOTCH Transcription and Translation
R-HSA-201722 Formation of the beta-catenin:TCF transactivating complex
R-HSA-212300 PRC2 methylates histones and DNA
R-HSA-2299718 Condensation of Prophase Chromosomes
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-HSA-2559586 DNA Damage/Telomere Stress Induced Senescence
R-HSA-3214815 HDACs deacetylate histones
R-HSA-3214847 HATs acetylate histones
R-HSA-427359 SIRT1 negatively regulates rRNA expression
R-HSA-427389 ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-5250924 B-WICH complex positively regulates rRNA expression
R-HSA-5334118 DNA methylation
R-HSA-5578749 Transcriptional regulation by small RNAs
R-HSA-5617472 Activation of anterior HOX genes in hindbrain development during early embryogenesis
R-HSA-5625886 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
R-HSA-5689880 Ub-specific processing proteases
R-HSA-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-HSA-5693571 Nonhomologous End-Joining (NHEJ)
R-HSA-5693607 Processing of DNA double-strand break ends
R-HSA-606279 Deposition of new CENPA-containing nucleosomes at the centromere
R-HSA-69473 G2/M DNA damage checkpoint
R-HSA-73728 RNA Polymerase I Promoter Opening
R-HSA-73777 RNA Polymerase I Chain Elongation
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-HSA-8939236 RUNX1 regulates transcription of genes involved in differentiation of HSCs
R-HSA-9018519 Estrogen-dependent gene expression
R-HSA-912446 Meiotic recombination
R-HSA-977225 Amyloid fiber formation

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2B type 1-A
Alternative name(s):
Histone H2B, testis1 Publication
Short name:
TSH2B.1
Short name:
hTSH2B1 Publication
Testis-specific histone H2B1 Publication
Gene namesi
Name:HIST1H2BA
Synonyms:TSH2B1 Publication
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

EuPathDBiHostDB:ENSG00000146047.5
HGNCiHGNC:18730 HIST1H2BA
MIMi609904 gene
neXtProtiNX_Q96A08

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

OpenTargetsiENSG00000146047
PharmGKBiPA134937673

Polymorphism and mutation databases

BioMutaiHIST1H2BA
DMDMi51316070

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000718422 – 127Histone H2B type 1-AAdd BLAST126

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylprolineBy similarity1
Modified residuei7N6-acetyllysine; alternate1 Publication1
Modified residuei7N6-crotonyllysine; alternate1 Publication1
Cross-linki7Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei13N6-acetyllysine; alternateBy similarity1
Modified residuei13N6-crotonyllysine; alternate1 Publication1
Modified residuei14N6-acetyllysine; alternate1 Publication1
Modified residuei14N6-crotonyllysine; alternate1 Publication1
Modified residuei17N6-acetyllysine; alternate1 Publication1
Modified residuei17N6-crotonyllysine; alternate1 Publication1
Modified residuei18N6-acetyllysine; alternateBy similarity1
Modified residuei18N6-crotonyllysine; alternate1 Publication1
Modified residuei22N6-acetyllysine; alternate1 Publication1
Modified residuei22N6-crotonyllysine; alternate1 Publication1
Cross-linki22Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei25N6-acetyllysine; alternateBy similarity1
Modified residuei25N6-crotonyllysine; alternate1 Publication1
Modified residuei36N6-crotonyllysine; alternate1 Publication1
Modified residuei36N6-succinyllysine; alternateBy similarity1
Cross-linki36Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternateBy similarity
Modified residuei38PhosphoserineBy similarity1
Modified residuei48N6-methyllysineBy similarity1
Modified residuei59N6,N6-dimethyllysineBy similarity1
Modified residuei81Dimethylated arginine1 Publication1
Modified residuei86Phosphoserine1 Publication1
Modified residuei87N6,N6,N6-trimethyllysine; alternate1 Publication1
Modified residuei87N6-acetyllysine; alternate1 Publication1
Modified residuei88Omega-N-methylarginine1 Publication1
Modified residuei94Omega-N-methylarginine1 Publication1
Modified residuei110N6-methyllysineBy similarity1
Modified residuei117PhosphothreonineBy similarity1
Modified residuei118N6-methylated lysine; alternateBy similarity1
Modified residuei118N6-succinyllysine; alternateBy similarity1
Modified residuei122N6-succinyllysine; alternateBy similarity1
Cross-linki122Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate2 Publications

Post-translational modificationi

Monoubiquitination at Lys-36 (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-122 (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.2 Publications
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
Acetylated during spermatogenesis. Acetylated form is most abundant in spermatogonia compared to spermatocytes and round spermatids (By similarity).By similarity
Phosphorylated at Thr-117 in spermatogonia, spermatocytes and round spermatids.By similarity
Methylated at Lys-118 in spermatogonia, spermatocytes and round spermatids.By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ96A08
MaxQBiQ96A08
PaxDbiQ96A08
PeptideAtlasiQ96A08
PRIDEiQ96A08
ProteomicsDBi75889
TopDownProteomicsiQ96A08

PTM databases

iPTMnetiQ96A08
PhosphoSitePlusiQ96A08
SwissPalmiQ96A08

Expressioni

Tissue specificityi

Mainly expressed in testis, and the corresponding protein is also present in mature sperm (at protein level). Also found in some fat cells.2 Publications

Gene expression databases

BgeeiENSG00000146047 Expressed in 19 organ(s), highest expression level in right testis
CleanExiHS_HIST1H2BA
GenevisibleiQ96A08 HS

Organism-specific databases

HPAiCAB011603
HPA042205
HPA043013

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.By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi129111, 97 interactors
IntActiQ96A08, 11 interactors
MINTiQ96A08
STRINGi9606.ENSP00000274764

Structurei

Secondary structure

1127
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ96A08
SMRiQ96A08
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

eggNOGiKOG1744 Eukaryota
ENOG4111NV5 LUCA
GeneTreeiENSGT00760000118976
HOGENOMiHOG000231213
HOVERGENiHBG007774
InParanoidiQ96A08
KOiK11252
OMAiXYLNSSI
OrthoDBiEOG091G0XGD
PhylomeDBiQ96A08
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

Sequencei

Sequence statusi: Complete.

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

Q96A08-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPEVSSKGAT ISKKGFKKAV VKTQKKEGKK RKRTRKESYS IYIYKVLKQV
60 70 80 90 100
HPDTGISSKA MSIMNSFVTD IFERIASEAS RLAHYSKRST ISSREIQTAV
110 120
RLLLPGELAK HAVSEGTKAV TKYTSSK
Length:127
Mass (Da):14,167
Last modified:January 23, 2007 - v3
Checksum:i3EE4124DA9B3C3E8
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti2P → A in AAH66243 (PubMed:15489334).Curated1
Sequence conflicti22K → E in AAH66241 (PubMed:15489334).Curated1
Sequence conflicti80S → P in AAH66240 (PubMed:15489334).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF397301 Genomic DNA Translation: AAK84040.1
AF531284 Genomic DNA Translation: AAN06684.1
AK312055 mRNA Translation: BAG34991.1
AL512384 Genomic DNA No translation available.
CH471087 Genomic DNA Translation: EAW55490.1
BC066238 mRNA Translation: AAH66238.1
BC066239 mRNA Translation: AAH66239.1
BC066240 mRNA Translation: AAH66240.1
BC066241 mRNA Translation: AAH66241.1
BC066242 mRNA Translation: AAH66242.1
BC066243 mRNA Translation: AAH66243.1
CCDSiCCDS4563.1
RefSeqiNP_733759.1, NM_170610.2
UniGeneiHs.591786

Genome annotation databases

EnsembliENST00000274764; ENSP00000274764; ENSG00000146047
GeneIDi255626
KEGGihsa:255626
UCSCiuc003nfd.4 human

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF397301 Genomic DNA Translation: AAK84040.1
AF531284 Genomic DNA Translation: AAN06684.1
AK312055 mRNA Translation: BAG34991.1
AL512384 Genomic DNA No translation available.
CH471087 Genomic DNA Translation: EAW55490.1
BC066238 mRNA Translation: AAH66238.1
BC066239 mRNA Translation: AAH66239.1
BC066240 mRNA Translation: AAH66240.1
BC066241 mRNA Translation: AAH66241.1
BC066242 mRNA Translation: AAH66242.1
BC066243 mRNA Translation: AAH66243.1
CCDSiCCDS4563.1
RefSeqiNP_733759.1, NM_170610.2
UniGeneiHs.591786

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3WKJX-ray2.80D/H1-127[»]
5GSUX-ray3.10D/H2-127[»]
5GT3X-ray2.91D/H2-127[»]
6BIYX-ray2.05C70-82[»]
ProteinModelPortaliQ96A08
SMRiQ96A08
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi129111, 97 interactors
IntActiQ96A08, 11 interactors
MINTiQ96A08
STRINGi9606.ENSP00000274764

PTM databases

iPTMnetiQ96A08
PhosphoSitePlusiQ96A08
SwissPalmiQ96A08

Polymorphism and mutation databases

BioMutaiHIST1H2BA
DMDMi51316070

Proteomic databases

EPDiQ96A08
MaxQBiQ96A08
PaxDbiQ96A08
PeptideAtlasiQ96A08
PRIDEiQ96A08
ProteomicsDBi75889
TopDownProteomicsiQ96A08

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000274764; ENSP00000274764; ENSG00000146047
GeneIDi255626
KEGGihsa:255626
UCSCiuc003nfd.4 human

Organism-specific databases

CTDi255626
EuPathDBiHostDB:ENSG00000146047.5
GeneCardsiHIST1H2BA
HGNCiHGNC:18730 HIST1H2BA
HPAiCAB011603
HPA042205
HPA043013
MIMi609904 gene
neXtProtiNX_Q96A08
OpenTargetsiENSG00000146047
PharmGKBiPA134937673
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1744 Eukaryota
ENOG4111NV5 LUCA
GeneTreeiENSGT00760000118976
HOGENOMiHOG000231213
HOVERGENiHBG007774
InParanoidiQ96A08
KOiK11252
OMAiXYLNSSI
OrthoDBiEOG091G0XGD
PhylomeDBiQ96A08
TreeFamiTF300212

Enzyme and pathway databases

ReactomeiR-HSA-1221632 Meiotic synapsis
R-HSA-171306 Packaging Of Telomere Ends
R-HSA-1912408 Pre-NOTCH Transcription and Translation
R-HSA-201722 Formation of the beta-catenin:TCF transactivating complex
R-HSA-212300 PRC2 methylates histones and DNA
R-HSA-2299718 Condensation of Prophase Chromosomes
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-HSA-2559586 DNA Damage/Telomere Stress Induced Senescence
R-HSA-3214815 HDACs deacetylate histones
R-HSA-3214847 HATs acetylate histones
R-HSA-427359 SIRT1 negatively regulates rRNA expression
R-HSA-427389 ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-5250924 B-WICH complex positively regulates rRNA expression
R-HSA-5334118 DNA methylation
R-HSA-5578749 Transcriptional regulation by small RNAs
R-HSA-5617472 Activation of anterior HOX genes in hindbrain development during early embryogenesis
R-HSA-5625886 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
R-HSA-5689880 Ub-specific processing proteases
R-HSA-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-HSA-5693571 Nonhomologous End-Joining (NHEJ)
R-HSA-5693607 Processing of DNA double-strand break ends
R-HSA-606279 Deposition of new CENPA-containing nucleosomes at the centromere
R-HSA-69473 G2/M DNA damage checkpoint
R-HSA-73728 RNA Polymerase I Promoter Opening
R-HSA-73777 RNA Polymerase I Chain Elongation
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function
R-HSA-8939236 RUNX1 regulates transcription of genes involved in differentiation of HSCs
R-HSA-9018519 Estrogen-dependent gene expression
R-HSA-912446 Meiotic recombination
R-HSA-977225 Amyloid fiber formation

Miscellaneous databases

GeneWikiiHIST1H2BA
GenomeRNAii255626
PROiPR:Q96A08
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000146047 Expressed in 19 organ(s), highest expression level in right testis
CleanExiHS_HIST1H2BA
GenevisibleiQ96A08 HS

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 nameiH2B1A_HUMAN
AccessioniPrimary (citable) accession number: Q96A08
Secondary accession number(s): B2R544
, Q6NZ98, Q6NZA0, Q6NZA1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 16, 2004
Last sequence update: January 23, 2007
Last modified: September 12, 2018
This is version 141 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  4. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
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