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Protein

Histone H2B type 1-A

Gene

Hist1h2ba

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Variant histone specifically required to direct the transformation of dissociating nucleosomes to protamine in male germ cells. 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. Also expressed maternally and is present in the female pronucleus, suggesting a similar role in protamine replacement by nucleosomes at fertilization. Also found in fat cells, its function and the presence of post-translational modifications specific to such cells are still unclear. 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 (By similarity).By similarity

GO - Molecular functioni

  • DNA binding Source: RGD

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-RNO-3214847. HATs acetylate histones.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2B type 1-A
Alternative name(s):
Histone H2B, testis
Testis-specific histone H2B
Gene namesi
Name:Hist1h2ba
Synonyms:Th2b
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 17

Organism-specific databases

RGDi3855. Hist1h2ba.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 127126Histone H2B type 1-APRO_0000071844Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylprolineBy similarity
Modified residuei7 – 71N6-acetyllysine; alternate1 Publication
Modified residuei7 – 71N6-crotonyllysine; alternateBy similarity
Cross-linki7 – 7Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei13 – 131N6-acetyllysine; alternateBy similarity
Modified residuei13 – 131N6-crotonyllysine; alternateBy similarity
Modified residuei14 – 141N6-acetyllysine; alternate2 Publications
Modified residuei14 – 141N6-crotonyllysine; alternateBy similarity
Modified residuei17 – 171N6-acetyllysine; alternate2 Publications
Modified residuei17 – 171N6-crotonyllysine; alternateBy similarity
Modified residuei18 – 181N6-acetyllysine; alternate1 Publication
Modified residuei18 – 181N6-crotonyllysine; alternateBy similarity
Modified residuei22 – 221N6-acetyllysine; alternate2 Publications
Modified residuei22 – 221N6-crotonyllysine; alternateBy similarity
Modified residuei25 – 251N6-acetyllysine; alternateBy similarity
Modified residuei25 – 251N6-crotonyllysine; alternateBy similarity
Modified residuei36 – 361N6-crotonyllysine; alternateBy similarity
Cross-linki36 – 36Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternateBy similarity
Modified residuei38 – 381PhosphoserineBy similarity
Modified residuei48 – 481N6-methyllysineBy similarity
Modified residuei59 – 591N6,N6-dimethyllysineBy similarity
Modified residuei81 – 811Dimethylated arginineBy similarity
Modified residuei87 – 871N6,N6,N6-trimethyllysine; alternateBy similarity
Modified residuei87 – 871N6-acetyllysine; alternateBy similarity
Modified residuei88 – 881Omega-N-methylarginineBy similarity
Modified residuei94 – 941Omega-N-methylarginineBy similarity
Modified residuei110 – 1101N6-methyllysineBy similarity
Modified residuei117 – 1171Phosphothreonine1 Publication
Modified residuei118 – 1181N6-methylated lysine1 Publication
Cross-linki122 – 122Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity

Post-translational modificationi

Monoubiquitination at Lys-36 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 of 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 (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 (By similarity).By similarity
Acetylated during spermatogenesis. Acetylated form is most abundant in spermatogonia compared to spermatocytes and round spermatids.2 Publications
Phosphorylated at Thr-117 in spermatogonia, spermatocytes and round spermatids.1 Publication
Methylated at Lys-118 in spermatogonia, spermatocytes and round spermatids.1 Publication

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ00729.
PRIDEiQ00729.

PTM databases

iPTMnetiQ00729.
PhosphoSiteiQ00729.

Expressioni

Tissue specificityi

Testis. Expressed in pachytene spermatocytes during meiotic prophase I in the absence of any significant DNA synthesis.1 Publication

Gene expression databases

BgeeiENSRNOG00000016865.
GenevisibleiQ00729. RN.

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.

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000022630.

Structurei

3D structure databases

ProteinModelPortaliQ00729.
SMRiQ00729. Positions 6-127.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

eggNOGiKOG1744. Eukaryota.
ENOG4111NV5. LUCA.
GeneTreeiENSGT00760000118976.
HOGENOMiHOG000231213.
HOVERGENiHBG007774.
InParanoidiQ00729.
KOiK11252.
OMAiHPRMSIM.
OrthoDBiEOG091G0XGD.
PhylomeDBiQ00729.
TreeFamiTF300212.

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.
PROSITEiPS00357. HISTONE_H2B. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q00729-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEVSAKGTT ISKKGFKKAV TKTQKKEGRK RKRCRKESYS IYIYKVLKQV
60 70 80 90 100
HPDTGISSKA MSIMNSFVTD IFERIAGEAS RLAHYNKRST ITSREIQTAV
110 120
RLLLPGELAK HAVSEGTKAV TKYTSSK
Length:127
Mass (Da):14,225
Last modified:January 23, 2007 - v2
Checksum:i14CE190F91769548
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti36 – 361K → E in AAA74755 (PubMed:3666307).Curated
Sequence conflicti36 – 361K → E in AAA74756 (PubMed:3666307).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M18045 mRNA. Translation: AAA74755.1.
M18046 mRNA. Translation: AAA74756.1.
X59962 Genomic DNA. Translation: CAA42587.1.
M25771 Genomic DNA. Translation: AAA74754.1.
PIRiA45945.
S26187.
RefSeqiNP_072169.1. NM_022643.1.
UniGeneiRn.10104.

Genome annotation databases

EnsembliENSRNOT00000022630; ENSRNOP00000022630; ENSRNOG00000016865.
GeneIDi24829.
KEGGirno:24829.
UCSCiRGD:3855. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M18045 mRNA. Translation: AAA74755.1.
M18046 mRNA. Translation: AAA74756.1.
X59962 Genomic DNA. Translation: CAA42587.1.
M25771 Genomic DNA. Translation: AAA74754.1.
PIRiA45945.
S26187.
RefSeqiNP_072169.1. NM_022643.1.
UniGeneiRn.10104.

3D structure databases

ProteinModelPortaliQ00729.
SMRiQ00729. Positions 6-127.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000022630.

PTM databases

iPTMnetiQ00729.
PhosphoSiteiQ00729.

Proteomic databases

PaxDbiQ00729.
PRIDEiQ00729.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000022630; ENSRNOP00000022630; ENSRNOG00000016865.
GeneIDi24829.
KEGGirno:24829.
UCSCiRGD:3855. rat.

Organism-specific databases

CTDi255626.
RGDi3855. Hist1h2ba.

Phylogenomic databases

eggNOGiKOG1744. Eukaryota.
ENOG4111NV5. LUCA.
GeneTreeiENSGT00760000118976.
HOGENOMiHOG000231213.
HOVERGENiHBG007774.
InParanoidiQ00729.
KOiK11252.
OMAiHPRMSIM.
OrthoDBiEOG091G0XGD.
PhylomeDBiQ00729.
TreeFamiTF300212.

Enzyme and pathway databases

ReactomeiR-RNO-3214847. HATs acetylate histones.

Miscellaneous databases

PROiQ00729.

Gene expression databases

BgeeiENSRNOG00000016865.
GenevisibleiQ00729. RN.

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.
PROSITEiPS00357. HISTONE_H2B. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiH2B1A_RAT
AccessioniPrimary (citable) accession number: Q00729
Secondary accession number(s): Q64677
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1993
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 124 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. 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.