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Protein

Histone H2B type 1-C/E/F/G/I

Gene

HIST1H2BC

more
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.
Has broad antibacterial activity. May contribute to the formation of the functional antimicrobial barrier of the colonic epithelium, and to the bactericidal activity of amniotic fluid.

GO - Molecular functioni

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

GO - Biological processi

  • antibacterial humoral response Source: UniProtKB
  • antimicrobial humoral immune response mediated by antimicrobial peptide Source: UniProtKB
  • defense response to Gram-positive bacterium Source: UniProtKB
  • innate immune response in mucosa Source: UniProtKB
  • nucleosome assembly Source: GO_Central
  • protein ubiquitination Source: Reactome

Keywordsi

Molecular functionAntibiotic, Antimicrobial, DNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-1221632 Meiotic synapsis
R-HSA-171306 Packaging Of Telomere Ends
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-C/E/F/G/I
Alternative name(s):
Histone H2B.1 A
Histone H2B.a
Short name:
H2B/a
Histone H2B.g
Short name:
H2B/g
Histone H2B.h
Short name:
H2B/h
Histone H2B.k
Short name:
H2B/k
Histone H2B.l
Short name:
H2B/l
Gene namesi
Name:HIST1H2BC
Synonyms:H2BFL
AND
Name:HIST1H2BE
Synonyms:H2BFH
AND
Name:HIST1H2BF
Synonyms:H2BFG
AND
Name:HIST1H2BG
Synonyms:H2BFA
AND
Name:HIST1H2BI
Synonyms:H2BFK
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

EuPathDBiHostDB:ENSG00000180596.7
HostDB:ENSG00000273802.2
HostDB:ENSG00000274290.2
HostDB:ENSG00000277224.2
HostDB:ENSG00000278588.1
HGNCiHGNC:4757 HIST1H2BC
HGNC:4753 HIST1H2BE
HGNC:4752 HIST1H2BF
HGNC:4746 HIST1H2BG
HGNC:4756 HIST1H2BI
MIMi602798 gene
602804 gene
602805 gene
602807 gene
602847 gene
neXtProtiNX_P62807

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

DisGeNETi8339
8344
8347
OpenTargetsiENSG00000180596
ENSG00000273802
ENSG00000274290
ENSG00000277224
ENSG00000278588
PharmGKBiPA29132

Polymorphism and mutation databases

BioMutaiHIST1H2BC
DMDMi290457686

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity5 Publications
ChainiPRO_00000718262 – 126Histone H2B type 1-C/E/F/G/IAdd 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; alternate2 Publications1
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; alternate1 Publication1
Modified residuei12N6-crotonyllysine; alternate1 Publication1
Modified residuei13N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei13N6-acetyllysine; alternate2 Publications1
Modified residuei13N6-crotonyllysine; alternate1 Publication1
Modified residuei15Phosphoserine; by STK4/MST11 Publication1
Modified residuei16N6-acetyllysine; alternate2 Publications1
Modified residuei16N6-crotonyllysine; alternate1 Publication1
Modified residuei17N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei17N6-acetyllysine; alternate1 Publication1
Modified residuei17N6-crotonyllysine; alternate1 Publication1
Modified residuei21N6-(2-hydroxyisobutyryl)lysine; alternate1 Publication1
Modified residuei21N6-(beta-hydroxybutyryl)lysine; alternate1 Publication1
Modified residuei21N6-acetyllysine; alternate2 Publications1
Modified residuei21N6-butyryllysine; alternate1 Publication1
Modified residuei21N6-crotonyllysine; alternate1 Publication1
Cross-linki21Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
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; alternate1 Publication1
Modified residuei58N6,N6-dimethyllysine; alternate1 Publication1
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; alternate1 Publication1
Glycosylationi113O-linked (GlcNAc) serine1 Publication1
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); alternate4 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.1 Publication
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.1 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, Glycoprotein, Hydroxylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiP62807
MaxQBiP62807
PaxDbiP62807
PeptideAtlasiP62807
PRIDEiP62807
ProteomicsDBi57425
TopDownProteomicsiP62807

PTM databases

iPTMnetiP62807
PhosphoSitePlusiP62807
SwissPalmiP62807

Expressioni

Gene expression databases

BgeeiENSG00000180596
CleanExiHS_HIST1H2BC
HS_HIST1H2BE
HS_HIST1H2BF
HS_HIST1H2BG
HS_HIST1H2BI
ExpressionAtlasiP62807 baseline and differential
GenevisibleiP62807 HS

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.

Binary interactionsi

Show more details

GO - Molecular functioni

  • identical protein binding Source: IntAct
  • protein heterodimerization activity Source: InterPro

Protein-protein interaction databases

BioGridi109270, 26 interactors
113935, 223 interactors
113939, 8 interactors
113940, 11 interactors
113942, 8 interactors
113943, 30 interactors
DIPiDIP-32890N
IntActiP62807, 46 interactors
MINTiP62807
STRINGi9606.ENSP00000366962

Structurei

Secondary structure

1126
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi39 – 49Combined sources11
Helixi57 – 84Combined sources28
Beta strandi88 – 90Combined sources3
Helixi92 – 102Combined sources11
Helixi105 – 124Combined sources20

3D structure databases

ProteinModelPortaliP62807
SMRiP62807
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

eggNOGiKOG1744 Eukaryota
ENOG4111NV5 LUCA
GeneTreeiENSGT00760000118976
HOGENOMiHOG000231213
HOVERGENiHBG007774
InParanoidiP62807
KOiK11252
OMAiTMAANDI
OrthoDBiEOG091G0XGD
PhylomeDBiP62807
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.

P62807-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEPAKSAPA PKKGSKKAVT KAQKKDGKKR KRSRKESYSV YVYKVLKQVH
60 70 80 90 100
PDTGISSKAM GIMNSFVNDI FERIAGEASR LAHYNKRSTI TSREIQTAVR
110 120
LLLPGELAKH AVSEGTKAVT KYTSSK
Length:126
Mass (Da):13,906
Last modified:March 2, 2010 - v4
Checksum:iFAE1479F44BE703D
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti5A → S in CAB02545 (PubMed:9119399).Curated1
Sequence conflicti33S → T in CAB02545 (PubMed:9119399).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_05588727G → S1 PublicationCorresponds to variant dbSNP:rs7766641Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M60750 Genomic DNA Translation: AAA63189.1
Z80782 Genomic DNA Translation: CAB02544.1
Z80779 Genomic DNA Translation: CAB02541.1
Z80780 Genomic DNA Translation: CAB02542.1
Z80783 Genomic DNA Translation: CAB02545.1
AF531286 Genomic DNA Translation: AAN06686.1
AF531288 Genomic DNA Translation: AAN06688.1
AF531289 Genomic DNA Translation: AAN06689.1
AF531290 Genomic DNA Translation: AAN06690.1
AF531292 Genomic DNA Translation: AAN06692.1
AL031777 Genomic DNA No translation available.
AL353759 Genomic DNA No translation available.
BC001131 mRNA No translation available.
BC009612 mRNA No translation available.
BC096120 mRNA Translation: AAH96120.1
BC096122 mRNA Translation: AAH96122.1
BC096123 mRNA Translation: AAH96123.1
BC101653 mRNA Translation: AAI01654.1
BC101655 mRNA Translation: AAI01656.1
BC101748 mRNA Translation: AAI01749.1
BC101750 mRNA Translation: AAI01751.1
BC106899 mRNA Translation: AAI06900.1
CCDSiCCDS4584.1
CCDS4588.1
CCDS4592.1
CCDS4594.1
CCDS4603.1
PIRiE40335 HSHUB2
S65409
RefSeqiNP_003509.1, NM_003518.3
NP_003513.1, NM_003522.3
NP_003514.2, NM_003523.2
NP_003516.1, NM_003525.2
NP_003517.2, NM_003526.2
NP_066407.1, NM_021063.3
UniGeneiHs.182137
Hs.534369
Hs.553506
Hs.591797
Hs.591809
Hs.658713
Hs.726509

Genome annotation databases

EnsembliENST00000314332; ENSP00000321744; ENSG00000180596
ENST00000356530; ENSP00000348924; ENSG00000277224
ENST00000377733; ENSP00000366962; ENSG00000278588
ENST00000396984; ENSP00000380180; ENSG00000180596
ENST00000541790; ENSP00000445633; ENSG00000273802
ENST00000614097; ENSP00000483237; ENSG00000274290
ENST00000634910; ENSP00000489317; ENSG00000274290
GeneIDi3017
8339
8343
8344
8346
8347
KEGGihsa:3017
hsa:8339
hsa:8343
hsa:8344
hsa:8346
hsa:8347
UCSCiuc003ngk.5 human

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Entry informationi

Entry nameiH2B1C_HUMAN
AccessioniPrimary (citable) accession number: P62807
Secondary accession number(s): P02278
, Q3B872, Q4VB69, Q93078, Q93080
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: March 2, 2010
Last modified: July 18, 2018
This is version 162 of the entry and version 4 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, Direct protein sequencing, Reference proteome

Documents

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

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