Reviewed,
UniProtKB/Swiss-Prot Q5VVJ2 (MYSM1_HUMAN)
Last modified
January 19, 2010.
Version 68.
History...
Clusters with 100%,
90%,
50% identity |
Documents (6) |
Third-party data |
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Names and origin
| Protein names | Recommended name: Histone H2A deubiquitinase MYSM1 Short name=2A-DUB EC=3.1.2.15 Alternative name(s): Myb-like, SWIRM and MPN domain-containing protein 1 | ||||
| Gene names |
| ||||
| Organism | Homo sapiens (Human) [Complete 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 | 828 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | Metalloprotease that specifically deubiquitinates monoubiquitinated histone H2A, a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Preferentially deubiquitinates monoubiquitinated H2A in hyperacetylated nucleosomes. Deubiquitination of histone H2A leads to facilitate the phosphorylation and dissociation of histone H1 from the nucleosome. Acts as a coactivator by participating in the initiation and elongation steps of androgen receptor (AR)-induced gene activation. Ref.5 |
| Catalytic activity | Ubiquitin C-terminal thioester + H2O = ubiquitin + a thiol. |
| Subunit structure | Component of a large chromatin remodeling complex, at least composed of MYSM1, PCAF, RBM10 and KIF11/TRIP5. Binds histones. |
| Subcellular location | |
| Domain | Binds double-stranded DNA via the SANT domain. The SWIRM domain does not bind double-stranded DNA. |
| Post-translational modification | Phosphorylated upon DNA damage, probably by ATM or ATR. Ref.6 Ref.7 Ref.8 |
| Sequence similarities | Belongs to the peptidase M67A family. MYSM1 subfamily. Contains 1 MPN (JAB/Mov34) domain. Contains 1 SANT domain. Contains 1 SWIRM domain. |
Ontologies
Alternative products
| This entry describes 3 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: Q5VVJ2-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Note: No experimental confirmation available. | ||||||
| Isoform 2 (identifier: Q5VVJ2-2) The sequence of this isoform differs from the canonical sequence as follows: 1-253: Missing. | ||||||
| Note: No experimental confirmation available. | ||||||
| Isoform 3 (identifier: Q5VVJ2-3) The sequence of this isoform differs from the canonical sequence as follows: 1-594: Missing. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 828 | 828 | Histone H2A deubiquitinase MYSM1 | PRO_0000234073 | |||||||||||||||||||||||||||
Regions | |||||||||||||||||||||||||||||||
| Domain | 116 – 167 | 52 | SANT | ||||||||||||||||||||||||||||
| Domain | 372 – 470 | 99 | SWIRM | ||||||||||||||||||||||||||||
| Domain | 572 – 682 | 111 | MPN | ||||||||||||||||||||||||||||
| Motif | 656 – 669 | 14 | JAMM motif | ||||||||||||||||||||||||||||
| Motif | 774 – 778 | 5 | LXXLL motif | ||||||||||||||||||||||||||||
Sites | |||||||||||||||||||||||||||||||
| Metal binding | 656 | 1 | Zinc; catalytic By similarity | ||||||||||||||||||||||||||||
| Metal binding | 658 | 1 | Zinc; catalytic By similarity | ||||||||||||||||||||||||||||
| Metal binding | 669 | 1 | Zinc; catalytic Probable | ||||||||||||||||||||||||||||
Amino acid modifications | |||||||||||||||||||||||||||||||
| Modified residue | 218 | 1 | Phosphoserine Ref.6 Ref.7 Ref.8 | ||||||||||||||||||||||||||||
| Modified residue | 234 | 1 | Phosphoserine Ref.6 | ||||||||||||||||||||||||||||
| Modified residue | 236 | 1 | Phosphothreonine Ref.8 | ||||||||||||||||||||||||||||
| Modified residue | 267 | 1 | Phosphoserine Ref.6 | ||||||||||||||||||||||||||||
Natural variations | |||||||||||||||||||||||||||||||
| Alternative sequence | 1 – 594 | 594 | Missing in isoform 3. | VSP_018210 | |||||||||||||||||||||||||||
| Alternative sequence | 1 – 253 | 253 | Missing in isoform 2. | VSP_018211 | |||||||||||||||||||||||||||
| Natural variant | 200 | 1 | C → S: dbSNP rs17118103. | VAR_051814 | |||||||||||||||||||||||||||
| Natural variant | 264 | 1 | T → A: dbSNP rs12139511. Ref.1 Ref.2 | VAR_051815 | |||||||||||||||||||||||||||
| Natural variant | 825 | 1 | E → K: dbSNP rs232777. | VAR_051816 | |||||||||||||||||||||||||||
Experimental info | |||||||||||||||||||||||||||||||
| Mutagenesis | 669 | 1 | D → N: Abolishes H2A deubiquitination. Ref.5 | ||||||||||||||||||||||||||||
| Sequence conflict | 231 | 1 | E → G in BAG54377. Ref.2 | ||||||||||||||||||||||||||||
| Sequence conflict | 540 | 1 | G → D in BAG54377. Ref.2 | ||||||||||||||||||||||||||||
| Sequence conflict | 782 | 1 | R → G in CAH18287. Ref.3 | ||||||||||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||||||||
| Helix | 123 – 135 | 13 | |||||||||||||||||||||||||||||
| Helix | 140 – 147 | 8 | |||||||||||||||||||||||||||||
| Beta strand | 148 – 150 | 3 | |||||||||||||||||||||||||||||
| Helix | 152 – 166 | 15 | |||||||||||||||||||||||||||||
| Helix | 388 – 391 | 4 | |||||||||||||||||||||||||||||
| Helix | 395 – 398 | 4 | |||||||||||||||||||||||||||||
| Helix | 406 – 423 | 18 | |||||||||||||||||||||||||||||
| Helix | 430 – 432 | 3 | |||||||||||||||||||||||||||||
| Turn | 433 – 437 | 5 | |||||||||||||||||||||||||||||
| Beta strand | 438 – 441 | 4 | |||||||||||||||||||||||||||||
| Helix | 443 – 456 | 14 | |||||||||||||||||||||||||||||
| Beta strand | 457 – 460 | 4 | |||||||||||||||||||||||||||||
| Beta strand | 466 – 468 | 3 | |||||||||||||||||||||||||||||
Sequences
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References
| [1] | "Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins." Nagase T., Kikuno R., Ohara O. DNA Res. 8:179-187(2001) [PubMed: 11572484] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2), VARIANT ALA-264. Tissue: Brain. |
| [2] | "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] (ISOFORM 3), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 144-828 (ISOFORM 1), VARIANT ALA-264. Tissue: Trachea. |
| [3] | "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] (ISOFORM 3), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-133 (ISOFORM 1). Tissue: Fetal skin and Liver. |
| [4] | "The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. Bentley D.R.Nature 441:315-321(2006) [PubMed: 16710414] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "A histone H2A deubiquitinase complex coordinating histone acetylation and H1 dissociation in transcriptional regulation." Zhu P., Zhou W., Wang J., Puc J., Ohgi K.A., Erdjument-Bromage H., Tempst P., Glass C.K., Rosenfeld M.G. Mol. Cell 27:609-621(2007) [PubMed: 17707232] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, IDENTIFICATION IN COMPLEX, MUTAGENESIS OF ASP-669. |
| [6] | "ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage." Matsuoka S., Ballif B.A., Smogorzewska A., McDonald E.R. III, Hurov K.E., Luo J., Bakalarski C.E., Zhao Z., Solimini N., Lerenthal Y., Shiloh Y., Gygi S.P., Elledge S.J. Science 316:1160-1166(2007) [PubMed: 17525332] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-218; SER-234 AND SER-267, MASS SPECTROMETRY. |
| [7] | "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-218, MASS SPECTROMETRY. |
| [8] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed: 19690332] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-218 AND THR-236, MASS SPECTROMETRY. Tissue: T-cell. |
| [9] | "Structural and functional differences of SWIRM domain subtypes." Yoneyama M., Tochio N., Umehara T., Koshiba S., Inoue M., Yabuki T., Aoki M., Seki E., Matsuda T., Watanabe S., Tomo Y., Nishimura Y., Harada T., Terada T., Shirouzu M., Hayashizaki Y., Ohara O., Tanaka A., Kigawa T., Yokoyama S. J. Mol. Biol. 369:222-238(2007) [PubMed: 17428495] [Abstract] Cited for: STRUCTURE BY NMR OF 117-181 AND OF 367-470, INTERACTION WITH DNA. |
Cross-references
Sequence databases | |||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | AB067502 mRNA. Translation: BAB67808.1. Different initiation. AK126835 mRNA. Translation: BAG54377.1. Different initiation. AK292919 mRNA. Translation: BAF85608.1. BX537912 mRNA. Translation: CAD97896.1. CR627323 mRNA. Translation: CAH10370.1. CR749450 mRNA. Translation: CAH18287.1. AL450024, AL035411 Genomic DNA. Translation: CAH70737.1. AL035411, AL450024 Genomic DNA. Translation: CAI21908.1. | ||||||||||||||||||
| IPI | IPI00044725. IPI00740485. IPI00747702. | ||||||||||||||||||
| RefSeq | NP_001078956.1. | ||||||||||||||||||
3D structure databases | |||||||||||||||||||
| PDBe RCSB PDB PDBj |
| ||||||||||||||||||
| SMR | Q5VVJ2. Positions 577-698. | ||||||||||||||||||
| ModBase | Search... | ||||||||||||||||||
Protein-protein interaction databases | |||||||||||||||||||
| STRING | Q5VVJ2. | ||||||||||||||||||
Protein family/group databases | |||||||||||||||||||
| MEROPS | M67.005. | ||||||||||||||||||
PTM databases | |||||||||||||||||||
| PhosphoSite | Q5VVJ2. | ||||||||||||||||||
Proteomic databases | |||||||||||||||||||
| PRIDE | Q5VVJ2. | ||||||||||||||||||
Genome annotation databases | |||||||||||||||||||
| Ensembl | ENST00000472487; ENSP00000418734; ENSG00000162601; Homo sapiens. [Genome view] | ||||||||||||||||||
| GeneID | 114803. | ||||||||||||||||||
| KEGG | hsa:114803. | ||||||||||||||||||
| UCSC | uc009waa.1. human. uc009wab.1. human. | ||||||||||||||||||
Organism-specific databases | |||||||||||||||||||
| CTD | 114803. | ||||||||||||||||||
| GeneCards | GC01M058892. | ||||||||||||||||||
| H-InvDB | HIX0000634. | ||||||||||||||||||
| HGNC | HGNC:29401. MYSM1. | ||||||||||||||||||
| PharmGKB | PA142671301. | ||||||||||||||||||
| HUGE | Search... | ||||||||||||||||||
| GenAtlas | Search... | ||||||||||||||||||
Phylogenomic databases | |||||||||||||||||||
| eggNOG | prNOG14867. | ||||||||||||||||||
| HOVERGEN | Q5VVJ2. | ||||||||||||||||||
| InParanoid | Q5VVJ2. | ||||||||||||||||||
| OMA | DKIFRRD. | ||||||||||||||||||
| OrthoDB | EOG94J53B. | ||||||||||||||||||
Gene expression databases | |||||||||||||||||||
| ArrayExpress | Q5VVJ2. | ||||||||||||||||||
| Bgee | Q5VVJ2. | ||||||||||||||||||
| CleanEx | HS_MYSM1. | ||||||||||||||||||
| Genevestigator | Q5VVJ2. | ||||||||||||||||||
| GermOnline | ENSG00000162601. Homo sapiens. | ||||||||||||||||||
Family and domain databases | |||||||||||||||||||
| InterPro | IPR009057. Homeodomain-like. IPR012287. Homeodomain-rel. IPR000555. Mov34_MPN_PAD1. IPR014778. Myb_DNA-bd. IPR001005. SANT_DNA-bd. IPR017884. SANT_eukarya. IPR007526. SWIRM. [Graphical view] | ||||||||||||||||||
| Gene3D | G3DSA:1.10.10.60. Homeodomain-rel. 1 hit. | ||||||||||||||||||
| Pfam | PF01398. Mov34. 1 hit. PF00249. Myb_DNA-binding. 1 hit. PF04433. SWIRM. 1 hit. [Graphical view] | ||||||||||||||||||
| SMART | SM00232. JAB_MPN. 1 hit. SM00717. SANT. 1 hit. [Graphical view] | ||||||||||||||||||
| PROSITE | PS51293. SANT. 1 hit. PS50934. SWIRM. 1 hit. [Graphical view] | ||||||||||||||||||
| ProtoNet | Search... | ||||||||||||||||||
Other Resources | |||||||||||||||||||
| NextBio | 79254. | ||||||||||||||||||
Entry information
| Entry name | MYSM1_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q5VVJ2 Secondary accession number(s): A8KA54 Q96PX3 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HPI (Human Proteome Initiative) | ||||||||
| 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 1 Human chromosome 1: 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 |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| Peptidase families Classification of peptidase families and list of entries |
| SIMILARITY comments Index of protein domains and families |

Clusters with


