P09429 (HMGB1_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
January 25, 2012.
Version 131.
History...
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: High mobility group protein B1 Alternative name(s): High mobility group protein 1 Short name=HMG-1 | ||||
| Gene names |
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| Organism | Homo sapiens (Human) | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Protein attributes
| Sequence length | 215 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 | DNA binding proteins that associates with chromatin and has the ability to bend DNA. Binds preferentially single-stranded DNA. Involved in V(D)J recombination by acting as a cofactor of the RAG complex. Acts by stimulating cleavage and RAG protein binding at the 23 bp spacer of conserved recombination signal sequences (RSS). Heparin-binding protein that has a role in the extension of neurite-type cytoplasmic processes in developing cells By similarity. |
| Subunit structure | Component of the RAG complex composed of core components RAG1 and RAG2, and associated component HMGB1 or HMGB2 By similarity. |
| Subcellular location | |
| Sequence similarities | Belongs to the HMGB family. Contains 2 HMG box DNA-binding domains. |
Ontologies
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | |||||||||||||||||||||||||
Molecule processing | ||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Initiator methionine | 1 | 1 | Removed | |||||||||||||||||||||||||||
| Chain | 2 – 215 | 214 | High mobility group protein B1 | PRO_0000048526 | ||||||||||||||||||||||||||
Regions | ||||||||||||||||||||||||||||||
| DNA binding | 9 – 79 | 71 | HMG box 1 | |||||||||||||||||||||||||||
| DNA binding | 95 – 163 | 69 | HMG box 2 | |||||||||||||||||||||||||||
| Compositional bias | 186 – 215 | 30 | Asp/Glu-rich (acidic) | |||||||||||||||||||||||||||
Amino acid modifications | ||||||||||||||||||||||||||||||
| Modified residue | 12 | 1 | N6-acetyllysine Ref.19 | |||||||||||||||||||||||||||
| Modified residue | 30 | 1 | N6-acetyllysine Ref.15 Ref.19 | |||||||||||||||||||||||||||
| Modified residue | 35 | 1 | Phosphoserine Ref.16 Ref.17 | |||||||||||||||||||||||||||
| Modified residue | 100 | 1 | Phosphoserine Ref.17 | |||||||||||||||||||||||||||
| Cross-link | 112 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) Ref.18 | ||||||||||||||||||||||||||||
Natural variations | ||||||||||||||||||||||||||||||
| Natural variant | 11 | 1 | G → R in gastric-carcinoma cell line. Ref.3 | VAR_046451 | ||||||||||||||||||||||||||
| Natural variant | 149 | 1 | A → E in gastric-carcinoma cell line. Ref.3 | VAR_046452 | ||||||||||||||||||||||||||
| Natural variant | 156 | 1 | E → Q. Ref.10 | VAR_046453 | ||||||||||||||||||||||||||
| Natural variant | 190 | 1 | D → G in gastric-carcinoma cell line. Ref.3 | VAR_046454 | ||||||||||||||||||||||||||
Experimental info | ||||||||||||||||||||||||||||||
| Sequence conflict | 143 | 1 | P → H in AAI41845. Ref.13 | |||||||||||||||||||||||||||
| Sequence conflict | 215 | 1 | E → D in CAG33144. Ref.8 | |||||||||||||||||||||||||||
Secondary structure | ||||||||||||||||||||||||||||||
Helix Strand Turn | ||||||||||||||||||||||||||||||
| Helix | 15 – 30 | 16 | ||||||||||||||||||||||||||||
| Helix | 38 – 51 | 14 | ||||||||||||||||||||||||||||
| Turn | 54 – 56 | 3 | ||||||||||||||||||||||||||||
| Helix | 60 – 70 | 11 | ||||||||||||||||||||||||||||
| Helix | 72 – 77 | 6 | ||||||||||||||||||||||||||||
| Beta strand | 92 – 94 | 3 | ||||||||||||||||||||||||||||
| Helix | 101 – 113 | 13 | ||||||||||||||||||||||||||||
| Helix | 125 – 128 | 4 | ||||||||||||||||||||||||||||
| Helix | 132 – 135 | 4 | ||||||||||||||||||||||||||||
| Helix | 138 – 140 | 3 | ||||||||||||||||||||||||||||
| Helix | 141 – 163 | 23 | ||||||||||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "A human placental cDNA clone that encodes nonhistone chromosomal protein HMG-1." Wen L., Huang J.K., Johnson B.H., Reeck G.R. Nucleic Acids Res. 17:1197-1214(1989) [PubMed: 2922262] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. |
| [2] | "The active gene that encodes human high mobility group 1 protein (HMG1) contains introns and maps to chromosome 13." Ferrari S., Finelli P., Rocchi M., Bianchi M.E. Genomics 35:367-371(1996) [PubMed: 8661151] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [3] | "Expression of high-mobility group-1 mRNA in human gastrointestinal adenocarcinoma and corresponding non-cancerous mucosa." Xiang Y.-Y., Wang D.-Y., Tanaka M., Suzuki M., Kiyokawa E., Igarashi H., Niato Y., Shen Q., Sugimura H. Int. J. Cancer 74:1-6(1997) [PubMed: 9036861] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANTS ARG-11; GLU-149 AND GLY-190. |
| [4] | "The genetic variation of the human HMGB1 gene." Kornblit B., Munthe-Fog L., Petersen S., Madsen H., Vindeloev L., Garred P. Tissue Antigens 70:151-156(2007) [PubMed: 17610420] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [5] | He F.T., Yang Z.H., Ji Q., Li R., Peng J., Jiang Y., Zhong X. Submitted (SEP-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA]. |
| [6] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Cerebellum. |
| [7] | "The full-ORF clone resource of the German cDNA consortium." Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I. BMC Genomics 8:399-399(2007) [PubMed: 17974005] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Small intestine. |
| [8] | "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)." Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B. Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. |
| [9] | "Cloning of human full-length CDSs in BD Creator(TM) system donor vector." Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A. Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. |
| [10] | SeattleSNPs variation discovery resource Submitted (JUL-2007) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT GLN-156. |
| [11] | "The DNA sequence and analysis of human chromosome 13." Dunham A., Matthews L.H., Burton J., Ashurst J.L., Howe K.L., Ashcroft K.J., Beare D.M., Burford D.C., Hunt S.E., Griffiths-Jones S., Jones M.C., Keenan S.J., Oliver K., Scott C.E., Ainscough R., Almeida J.P., Ambrose K.D., Andrews D.T. Ross M.T.Nature 428:522-528(2004) [PubMed: 15057823] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [12] | Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. Venter J.C.Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [13] | "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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Brain, Cervix and Testis. |
| [14] | "Two-dimensional electrophoretic analysis of human breast carcinoma proteins: mapping of proteins that bind to the SH3 domain of mixed lineage kinase MLK2." Rasmussen R.K., Ji H., Eddes J.S., Moritz R.L., Reid G.E., Simpson R.J., Dorow D.S. Electrophoresis 18:588-598(1997) [PubMed: 9150946] [Abstract] Cited for: PROTEIN SEQUENCE OF 58-65 AND 113-127. Tissue: Mammary carcinoma. |
| [15] | "Substrate and functional diversity of lysine acetylation revealed by a proteomics survey." Kim S.C., Sprung R., Chen Y., Xu Y., Ball H., Pei J., Cheng T., Kho Y., Xiao H., Xiao L., Grishin N.V., White M., Yang X.-J., Zhao Y. Mol. Cell 23:607-618(2006) [PubMed: 16916647] [Abstract] Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-30, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [16] | "Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry." Molina H., Horn D.M., Tang N., Mathivanan S., Pandey A. Proc. Natl. Acad. Sci. U.S.A. 104:2199-2204(2007) [PubMed: 17287340] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-35, MASS SPECTROMETRY. Tissue: Embryonic kidney. |
| [17] | "A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed: 18669648] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-35 AND SER-100, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [18] | "Proteomic analysis of ubiquitinated proteins in normal hepatocyte cell line Chang liver cells." Tan F., Lu L., Cai Y., Wang J., Xie Y., Wang L., Gong Y., Xu B.-E., Wu J., Luo Y., Qiang B., Yuan J., Sun X., Peng X. Proteomics 8:2885-2896(2008) [PubMed: 18655026] [Abstract] Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-112, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [19] | "Lysine acetylation targets protein complexes and co-regulates major cellular functions." Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T., Olsen J.V., Mann M. Science 325:834-840(2009) [PubMed: 19608861] [Abstract] Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-12 AND LYS-30, MASS SPECTROMETRY. |
| [20] | "Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed: 21269460] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. |
| [21] | "Solution structure of the tandem HMG box domain from human high mobility group protein B1." RIKEN structural genomics initiative (RSGI) Submitted (FEB-2008) to the PDB data bank Cited for: STRUCTURE BY NMR OF 1-166. |
| + | Additional computationally mapped references. |
Web resources
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | X12597 mRNA. Translation: CAA31110.1. U51677 Genomic DNA. Translation: AAB08987.1. D63874 mRNA. Translation: BAA09924.1. EF157968 Genomic DNA. Translation: ABM47301.1. AY377859 mRNA. Translation: AAQ91389.1. AK291494 mRNA. Translation: BAF84183.1. AK122825 mRNA. Translation: BAG53745.1. CR749614 mRNA. Translation: CAH18408.1. CR456863 mRNA. Translation: CAG33144.1. BT006940 mRNA. Translation: AAP35586.1. BT020159 mRNA. Translation: AAV38961.1. EU012027 Genomic DNA. Translation: ABS29271.1. AL353648 Genomic DNA. Translation: CAI15600.1. CH471075 Genomic DNA. Translation: EAX08457.1. BC003378 mRNA. Translation: AAH03378.1. BC030981 mRNA. Translation: AAH30981.1. BC066889 mRNA. Translation: AAH66889.1. BC067732 mRNA. Translation: AAH67732.1. BC141844 mRNA. Translation: AAI41845.1. | ||||||||||||
| IPI | IPI00419258. | ||||||||||||
| PIR | S02826. | ||||||||||||
| RefSeq | NP_002119.1. NM_002128.4. | ||||||||||||
| UniGene | Hs.434102. Hs.593339. Hs.596078. | ||||||||||||
3D structure databases | |||||||||||||
| PDBe RCSB PDB PDBj |
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| ProteinModelPortal | P09429. | ||||||||||||
| SMR | P09429. Positions 5-166. | ||||||||||||
| ModBase | Search... | ||||||||||||
Protein-protein interaction databases | |||||||||||||
| DIP | DIP-24195N. | ||||||||||||
| IntAct | P09429. 13 interactions. | ||||||||||||
| MINT | MINT-153055. | ||||||||||||
| STRING | P09429. | ||||||||||||
PTM databases | |||||||||||||
| PhosphoSite | P09429. | ||||||||||||
Polymorphism databases | |||||||||||||
| DMDM | 123369. | ||||||||||||
2D gel databases | |||||||||||||
| DOSAC-COBS-2DPAGE | P09429. | ||||||||||||
Proteomic databases | |||||||||||||
| PeptideAtlas | P09429. | ||||||||||||
| PRIDE | P09429. | ||||||||||||
Protocols and materials databases | |||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||
Genome annotation databases | |||||||||||||
| Ensembl | ENST00000339872; ENSP00000343040; ENSG00000189403. ENST00000341423; ENSP00000345347; ENSG00000189403. ENST00000399494; ENSP00000382417; ENSG00000189403. ENST00000405805; ENSP00000384678; ENSG00000189403. | ||||||||||||
| GeneID | 3146. | ||||||||||||
| KEGG | hsa:3146. | ||||||||||||
| UCSC | uc001usw.1. human. | ||||||||||||
Organism-specific databases | |||||||||||||
| CTD | 3146. | ||||||||||||
| GeneCards | GC13M031032. | ||||||||||||
| H-InvDB | HIX0011209. HIX0030745. | ||||||||||||
| HGNC | HGNC:4983. HMGB1. | ||||||||||||
| HPA | CAB005873. HPA003506. | ||||||||||||
| MIM | 163905. gene. | ||||||||||||
| neXtProt | NX_P09429. | ||||||||||||
| PharmGKB | PA188. | ||||||||||||
| GenAtlas | Search... | ||||||||||||
Phylogenomic databases | |||||||||||||
| eggNOG | prNOG09987. | ||||||||||||
| HOVERGEN | HBG009000. | ||||||||||||
| InParanoid | P09429. | ||||||||||||
| OrthoDB | EOG4KWJV1. | ||||||||||||
| PhylomeDB | P09429. | ||||||||||||
Enzyme and pathway databases | |||||||||||||
| Pathway_Interaction_DB | amb2_neutrophils_pathway. amb2 Integrin signaling. | ||||||||||||
| Reactome | REACT_578. Apoptosis. REACT_6900. Immune System. | ||||||||||||
Gene expression databases | |||||||||||||
| ArrayExpress | P09429. | ||||||||||||
| Bgee | P09429. | ||||||||||||
| CleanEx | HS_HMGB1. | ||||||||||||
| Genevestigator | P09429. | ||||||||||||
| GermOnline | ENSG00000189403. Homo sapiens. | ||||||||||||
Family and domain databases | |||||||||||||
| InterPro | IPR011989. ARM-like. IPR017967. HMG_boxA_CS. IPR000910. HMG_HMG1/HMG2. IPR000135. HMG_HMG1/HMG2_subgr. IPR009071. HMG_superfamily. [Graphical view] | ||||||||||||
| Gene3D | G3DSA:1.25.10.10. ARM-like. 1 hit. G3DSA:1.10.30.10. HMG-box. 2 hits. | ||||||||||||
| KO | K10802. | ||||||||||||
| Pfam | PF00505. HMG_box. 2 hits. [Graphical view] | ||||||||||||
| PRINTS | PR00886. HIGHMOBLTY12. | ||||||||||||
| SMART | SM00398. HMG. 2 hits. [Graphical view] | ||||||||||||
| SUPFAM | SSF47095. HMG-box. 2 hits. | ||||||||||||
| PROSITE | PS00353. HMG_BOX_1. 1 hit. PS50118. HMG_BOX_2. 2 hits. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Other | |||||||||||||
| NextBio | 12470. | ||||||||||||
| SOURCE | Search... | ||||||||||||
Entry information
| Entry name | HMGB1_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P09429 Secondary accession number(s): A5D8W9 Q6IBE1 | ||||||||
| 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 13 Human chromosome 13: 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 |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with