P62807 (H2B1C_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
April 3, 2013.
Version 106.
History...
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | 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 names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||||||||||||||||||||||
| Taxonomic identifier | 9606 [NCBI] | ||||||||||||||||||||||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 126 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | 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. Ref.7 Ref.9 Ref.10 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. Ref.7 Ref.9 Ref.10 |
| Subunit structure | 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. |
| Subcellular location | |
| Post-translational modification | 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. 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. Ref.12 GlcNAcylation at Ser-113 promotes monoubiquitination of Lys-121. It fluctuates in response to extracellular glucose, and associates with transcribed genes. 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. Ref.19 |
| Sequence similarities | Belongs to the histone H2B family. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Chromosome Nucleosome core Nucleus |
| Coding sequence diversity | Polymorphism |
| Ligand | DNA-binding |
| Molecular function | Antibiotic Antimicrobial |
| PTM | Acetylation Glycoprotein Isopeptide bond Methylation Phosphoprotein Ubl conjugation |
| Technical term | Complete proteome Direct protein sequencing Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | defense response to bacterium Inferred from electronic annotation. Source: UniProtKB-KW nucleosome assemblyNon-traceable author statement Ref.6Ref.2. Source: UniProtKB |
| Cellular_component | nucleosome Non-traceable author statement Ref.6Ref.2. Source: UniProtKB nucleusInferred from electronic annotation. Source: UniProtKB-SubCell |
| Molecular_function | DNA binding Non-traceable author statement Ref.6Ref.2. Source: UniProtKB |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Initiator methionine | 1 | 1 | Removed Ref.6 Ref.7 Ref.8 Ref.9 Ref.10 | ||||||
| Chain | 2 – 126 | 125 | Histone H2B type 1-C/E/F/G/I | PRO_0000071826 | |||||
Amino acid modifications | |||||||||
| Modified residue | 2 | 1 | N-acetylproline By similarity | ||||||
| Modified residue | 6 | 1 | N6-acetyllysine; alternate Ref.11 Ref.14 | ||||||
| Modified residue | 6 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 12 | 1 | N6-acetyllysine; alternate Ref.11 | ||||||
| Modified residue | 12 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 13 | 1 | N6-acetyllysine; alternate Ref.11 Ref.14 | ||||||
| Modified residue | 13 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 15 | 1 | Phosphoserine; by STK4/MST1 Ref.12 | ||||||
| Modified residue | 16 | 1 | N6-acetyllysine; alternate Ref.11 Ref.14 | ||||||
| Modified residue | 16 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 17 | 1 | N6-acetyllysine; alternate Ref.11 | ||||||
| Modified residue | 17 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 21 | 1 | N6-acetyllysine; alternate Ref.11 Ref.14 | ||||||
| Modified residue | 21 | 1 | N6-crotonyl-L-lysine; alternate | ||||||
| Modified residue | 24 | 1 | N6-acetyllysine; alternate By similarity | ||||||
| Modified residue | 24 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 35 | 1 | N6-acetyllysine; alternate By similarity | ||||||
| Modified residue | 35 | 1 | N6-crotonyl-L-lysine; alternate Ref.19 | ||||||
| Modified residue | 37 | 1 | Phosphoserine; by AMPK By similarity | ||||||
| Modified residue | 43 | 1 | Phosphotyrosine By similarity | ||||||
| Modified residue | 47 | 1 | N6-acetyllysine; alternate By similarity | ||||||
| Modified residue | 47 | 1 | N6-methyllysine; alternate Ref.11 | ||||||
| Modified residue | 58 | 1 | N6,N6-dimethyllysine Ref.11 | ||||||
| Modified residue | 79 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 86 | 1 | N6-acetyllysine By similarity | ||||||
| Modified residue | 109 | 1 | N6-acetyllysine; alternate By similarity | ||||||
| Modified residue | 109 | 1 | N6-methyllysine; alternate Ref.11 | ||||||
| Modified residue | 113 | 1 | Phosphoserine; alternate By similarity | ||||||
| Modified residue | 117 | 1 | N6-acetyllysine By similarity | ||||||
| Modified residue | 121 | 1 | N6-acetyllysine; alternate By similarity | ||||||
| Glycosylation | 113 | 1 | O-linked (GlcNAc...); alternate Ref.18 | ||||||
| Cross-link | 35 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate Ref.17 | |||||||
| Cross-link | 121 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate Ref.11 Ref.13 Ref.15 Ref.18 | |||||||
Natural variations | |||||||||
| Natural variant | 27 | 1 | G → S. Ref.2 Corresponds to variant rs7766641 [ dbSNP | Ensembl ]. | VAR_055887 | |||||
Experimental info | |||||||||
| Sequence conflict | 5 | 1 | A → S in CAB02545. Ref.2 | ||||||
| Sequence conflict | 33 | 1 | S → T in CAB02545. Ref.2 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Isolation and characterization of two human H1 histone genes within clusters of core histone genes." Albig W., Kardalinou E., Drabent B., Zimmer A., Doenecke D. Genomics 10:940-948(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (HIST1H2BG). |
| [2] | "Human histone gene organization: nonregular arrangement within a large cluster." Albig W., Kioschis P., Poustka A., Meergans K., Doenecke D. Genomics 40:314-322(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (HIST1H2BC; HIST1H2BE; HIST1H2BF AND HIST1H2BI), VARIANT SER-27. |
| [3] | "The human and mouse replication-dependent histone genes." Marzluff W.F., Gongidi P., Woods K.R., Jin J., Maltais L.J. Genomics 80:487-498(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (HIST1H2BC; HIST1H2BE; HIST1H2BF; HIST1H2BG AND HIST1H2BI). |
| [4] | "The DNA sequence and analysis of human chromosome 6." Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D. Beck S.Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] (HIST1H2BC; HIST1H2BE; HIST1H2BF; HIST1H2BG AND HIST1H2BI). |
| [5] | "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Lung and Ovary. |
| [6] | "Human spleen histone H2B. Isolation and amino acid sequence." Ohe Y., Hayashi H., Iwai K. J. Biochem. 85:615-624(1979) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-126. Tissue: Spleen. |
| [7] | "Endotoxin-neutralizing antimicrobial proteins of the human placenta." Kim H.S., Cho J.H., Park H.W., Yoon H., Kim M.S., Kim S.C. J. Immunol. 168:2356-2364(2002) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-21, FUNCTION. |
| [8] | "Biochemical and antibacterial analysis of human wound and blister fluid." Frohm M., Gunne H., Bergman A.-C., Agerberth B., Bergman T., Boman A., Liden S., Joernvall H., Boman H.G. Eur. J. Biochem. 237:86-92(1996) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-13. |
| [9] | "Antimicrobial peptides in the first line defence of human colon mucosa." Tollin M., Bergman P., Svenberg T., Joernvall H., Gudmundsson G.H., Agerberth B. Peptides 24:523-530(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-13, FUNCTION. |
| [10] | "Antimicrobial polypeptides of the human colonic epithelium." Howell S.J., Wilk D., Yadav S.P., Bevins C.L. Peptides 24:1763-1770(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-13, FUNCTION. |
| [11] | "Quantitative proteomic analysis of post-translational modifications of human histones." Beck H.C., Nielsen E.C., Matthiesen R., Jensen L.H., Sehested M., Finn P., Grauslund M., Hansen A.M., Jensen O.N. Mol. Cell. Proteomics 5:1314-1325(2006) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 7-24, ACETYLATION AT LYS-6; LYS-12; LYS-13; LYS-16; LYS-17 AND LYS-21, METHYLATION AT LYS-47; LYS-58 AND LYS-109, UBIQUITINATION AT LYS-121, MASS SPECTROMETRY. |
| [12] | "Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase." Cheung W.L., Ajiro K., Samejima K., Kloc M., Cheung P., Mizzen C.A., Beeser A., Etkin L.D., Chernoff J., Earnshaw W.C., Allis C.D. Cell 113:507-517(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION AT SER-15. |
| [13] | "Monoubiquitination of human histone H2B: the factors involved and their roles in HOX gene regulation." Zhu B., Zheng Y., Pham A.-D., Mandal S.S., Erdjument-Bromage H., Tempst P., Reinberg D. Mol. Cell 20:601-611(2005) [PubMed] [Europe PMC] [Abstract] Cited for: UBIQUITINATION AT LYS-121. |
| [14] | "Inhibition of core histones acetylation by carcinogenic nickel(II)." Golebiowski F., Kasprzak K.S. Mol. Cell. Biochem. 279:133-139(2005) [PubMed] [Europe PMC] [Abstract] Cited for: ACETYLATION AT LYS-6; LYS-13; LYS-16 AND LYS-21. |
| [15] | "Histone H2B monoubiquitination functions cooperatively with FACT to regulate elongation by RNA polymerase II." Pavri R., Zhu B., Li G., Trojer P., Mandal S., Shilatifard A., Reinberg D. Cell 125:703-717(2006) [PubMed] [Europe PMC] [Abstract] Cited for: UBIQUITINATION AT LYS-121. |
| [16] | "Gene-specific characterization of human histone H2B by electron capture dissociation." Siuti N., Roth M.J., Mizzen C.A., Kelleher N.L., Pesavento J.J. J. Proteome Res. 5:233-239(2006) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY. |
| [17] | "The RING finger protein MSL2 in the MOF complex is an E3 ubiquitin ligase for H2B K34 and is involved in crosstalk with H3 K4 and K79 methylation." Wu L., Zee B.M., Wang Y., Garcia B.A., Dou Y. Mol. Cell 43:132-144(2011) [PubMed] [Europe PMC] [Abstract] Cited for: UBIQUITINATION AT LYS-35. |
| [18] | "GlcNAcylation of histone H2B facilitates its monoubiquitination." Fujiki R., Hashiba W., Sekine H., Yokoyama A., Chikanishi T., Ito S., Imai Y., Kim J., He H.H., Igarashi K., Kanno J., Ohtake F., Kitagawa H., Roeder R.G., Brown M., Kato S. Nature 480:557-560(2011) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION AT SER-113, UBIQUITINATION AT LYS-121. |
| [19] | "Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification." Tan M., Luo H., Lee S., Jin F., Yang J.S., Montellier E., Buchou T., Cheng Z., Rousseaux S., Rajagopal N., Lu Z., Ye Z., Zhu Q., Wysocka J., Ye Y., Khochbin S., Ren B., Zhao Y. Cell 146:1016-1028(2011) [PubMed] [Europe PMC] [Abstract] Cited for: CROTONYLATION AT LYS-6; LYS-12; LYS-13; LYS-16; LYS-17; LYS-24 AND LYS-35. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | 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. Translation: CAC03411.1. AL031777 Genomic DNA. Translation: CAC03417.1. AL031777 Genomic DNA. Translation: CAC03420.1. AL353759 Genomic DNA. Translation: CAC04130.1. 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. |
| IPI | IPI00020101. |
| PIR | HSHUB2. E40335. S65409. |
| RefSeq | NP_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. |
| UniGene | Hs.182137. Hs.534369. Hs.553506. Hs.591797. Hs.591809. Hs.658713. Hs.726509. |
3D structure databases | |
| ProteinModelPortal | P62807. |
| SMR | P62807. Positions 5-126. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | P62807. 13 interactions. |
| MINT | MINT-276222. |
| STRING | 9606.ENSP00000321744. |
PTM databases | |
| PhosphoSite | P62807. |
Proteomic databases | |
| PaxDb | P62807. |
| PRIDE | P62807. |
Protocols and materials databases | |
| DNASU | 8339. 8344. 8347. |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000244601; ENSP00000244601; ENSG00000187990. ENST00000314332; ENSP00000321744; ENSG00000180596. ENST00000356530; ENSP00000348924; ENSG00000197697. ENST00000359985; ENSP00000353074; ENSG00000197846. ENST00000377733; ENSP00000366962; ENSG00000168242. ENST00000396984; ENSP00000380180; ENSG00000180596. |
| GeneID | 3017. 8339. 8343. 8344. 8346. 8347. |
| KEGG | hsa:3017. hsa:8339. hsa:8343. hsa:8344. hsa:8346. hsa:8347. |
| UCSC | uc003ngk.4. human. |
Organism-specific databases | |
| CTD | 3017. 8339. 8343. 8344. 8346. 8347. |
| GeneCards | GC06M026115. GC06M026216. GC06P026183. GC06P026199. GC06P026273. |
| HGNC | HGNC:4757. HIST1H2BC. HGNC:4753. HIST1H2BE. HGNC:4752. HIST1H2BF. HGNC:4746. HIST1H2BG. HGNC:4756. HIST1H2BI. |
| MIM | 602798. gene. 602804. gene. 602805. gene. 602807. gene. 602847. gene. |
| neXtProt | NX_P62807. |
| PharmGKB | PA29132. |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | NOG289161. |
| HOGENOM | HOG000231213. |
| HOVERGEN | HBG007774. |
| InParanoid | P62807. |
| KO | K11252. |
| OMA | NITAQYQ. |
| OrthoDB | EOG4HHP3Z. |
| PhylomeDB | P62807. |
Enzyme and pathway databases | |
| Reactome | REACT_111183. Meiosis. REACT_115566. Cell Cycle. REACT_116125. Disease. |
Gene expression databases | |
| ArrayExpress | P62807. |
| Bgee | P62807. |
| CleanEx | HS_HIST1H2BC. HS_HIST1H2BE. HS_HIST1H2BF. HS_HIST1H2BG. HS_HIST1H2BI. |
| Genevestigator | P62807. |
| GermOnline | ENSG00000168242. Homo sapiens. ENSG00000180596. Homo sapiens. ENSG00000187990. Homo sapiens. ENSG00000197697. Homo sapiens. ENSG00000197846. Homo sapiens. ENSG00000197903. Homo sapiens. |
Family and domain databases | |
| Gene3D | 1.10.20.10. 1 hit. |
| InterPro | IPR009072. Histone-fold. IPR007125. Histone_core_D. IPR000558. Histone_H2B. [Graphical view] |
| PANTHER | PTHR23428. PTHR23428. 1 hit. |
| Pfam | PF00125. Histone. 1 hit. [Graphical view] |
| PRINTS | PR00621. HISTONEH2B. |
| SMART | SM00427. H2B. 1 hit. [Graphical view] |
| SUPFAM | SSF47113. Histone-fold. 1 hit. |
| PROSITE | PS00357. HISTONE_H2B. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other | |
| ChiTaRS | HIST1H2BC. human. |
| NextBio | 11956. |
| SOURCE | Search... |
Entry information
| Entry name | H2B1C_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P62807 Secondary accession number(s): P02278 Q93080 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any 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. | ||||||||
Relevant documents
| Human chromosome 6 Human chromosome 6: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| SIMILARITY comments Index of protein domains and families |

Clusters with
