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Protein

Histone H2B-alpha

Gene

htb1

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
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.

Caution

To ensure consistency between histone entries, we follow the 'Brno' nomenclature for histone modifications, with positions referring to those used in the literature for the 'closest' model organism. Due to slight variations in histone sequences between organisms and to the presence of initiator methionine in UniProtKB/Swiss-Prot sequences, the actual positions of modified amino acids in the sequence generally differ. In this entry the following conventions are used: H2BK6ac = acetylated Lys-6; H2BK6su = sumoylated Lys-6; H2BK7ac = acetylated Lys-7; H2BK7su = sumoylated Lys-7; H2BS10ph = phosphorylated Ser-10; H2BK11ac = acetylated Lys-11; H2BK123ub1 = monoubiquitinated Lys-120.Curated

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-SPO-2299718 Condensation of Prophase Chromosomes
R-SPO-2559580 Oxidative Stress Induced Senescence
R-SPO-3214815 HDACs deacetylate histones
R-SPO-3214847 HATs acetylate histones
R-SPO-427359 SIRT1 negatively regulates rRNA expression
R-SPO-5578749 Transcriptional regulation by small RNAs
R-SPO-5689880 Ub-specific processing proteases
R-SPO-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2B-alpha
Alternative name(s):
H2B.1
Gene namesi
Name:htb1
ORF Names:SPCC622.09
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome III

Organism-specific databases

EuPathDBiFungiDB:SPCC622.09
PomBaseiSPCC622.09 htb1

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole 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

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi35E → K in HTB1-442; impairs growth at 36 degrees Celsius. 1 Publication1
Mutagenesisi53G → D in HTB1-72; impairs growth at 36 degrees Celsius, leads to chromosome missegregetion, chromatin shrinkage, and diminished chromatin silencing. 1 Publication1
Mutagenesisi103P → L in HTB1-223; impairs growth at 36 degrees Celsius, leads to chromosome missegregetion, chromatin shrinkage, histone H2B deubiquitination and diminished chromatin silencing. 1 Publication1
Mutagenesisi120K → R: Impairs ubiquitination. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000719372 – 126Histone H2B-alphaAdd BLAST125

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei6N6-acetyllysine; alternateBy similarity1
Cross-linki6Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO); alternateBy similarity
Modified residuei7N6-acetyllysine; alternateBy similarity1
Cross-linki7Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO); alternateBy similarity
Modified residuei10PhosphoserineBy similarity1
Modified residuei11N6-acetyllysineBy similarity1
Cross-linki120Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication

Post-translational modificationi

Monoubiquitinated by the rhp6/ubc2-bre1 complex to form H2BK123ub1. H2BK123ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for H3K4me and H3K79me formation. H2BK123ub1 also modulates the formation of double-strand breaks during meiosis and is a prerequisite for DNA-damage checkpoint activation (By similarity).By similarity
Phosphorylated by shk1 to form H2BS10ph during progression through meiotic prophase. May be correlated with chromosome condensation (By similarity).By similarity
Acetylation of N-terminal lysines and particularly formation of H2BK11ac has a positive effect on transcription.By similarity
Sumoylation to form H2BK6su or H2BK7su occurs preferentially near the telomeres and represses gene transcription.By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiP04913
PaxDbiP04913
PRIDEiP04913

PTM databases

iPTMnetiP04913
SwissPalmiP04913

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. Interacts with rik1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
rik1Q104262EBI-1112091,EBI-1111936

GO - Molecular functioni

Protein-protein interaction databases

BioGridi276085, 27 interactors
IntActiP04913, 1 interactor
STRINGi4896.SPCC622.09.1

Structurei

3D structure databases

ProteinModelPortaliP04913
SMRiP04913
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

HOGENOMiHOG000231213
InParanoidiP04913
KOiK11252
OMAiKATHAFN
OrthoDBiEOG092C5QTV
PhylomeDBiP04913

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.

P04913-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAAEKKPAS KAPAGKAPRD TMKSADKKRG KNRKETYSSY IYKVLKQVHP
60 70 80 90 100
DTGISNQAMR ILNSFVNDIF ERIATEASKL AAYNKKSTIS SREIQTAVRL
110 120
ILPGELAKHA VTEGTKSVTK YSSSAQ
Length:126
Mass (Da):13,819
Last modified:January 23, 2007 - v3
Checksum:i64A02B9AFE7414E3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti43K → R (PubMed:3018512).Curated1
Sequence conflicti43K → R (PubMed:4092687).Curated1
Sequence conflicti60R → P (PubMed:3018512).Curated1
Sequence conflicti60R → P (PubMed:4092687).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M11494 Genomic DNA Translation: AAA35312.1
X05220 Genomic DNA Translation: CAA28847.1
CU329672 Genomic DNA Translation: CAA21865.1
PIRiA27399 HSZPB2
RefSeqiNP_588181.1, NM_001023171.2

Genome annotation databases

EnsemblFungiiSPCC622.09.1; SPCC622.09.1:pep; SPCC622.09
GeneIDi2539523
KEGGispo:SPCC622.09

Similar proteinsi

Entry informationi

Entry nameiH2B1_SCHPO
AccessioniPrimary (citable) accession number: P04913
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: January 23, 2007
Last modified: June 20, 2018
This is version 153 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

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