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Protein

Histone H2A deubiquitinase MYSM1

Gene

MYSM1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi656Zinc; catalyticBy similarity1
Metal bindingi658Zinc; catalyticBy similarity1
Metal bindingi669Zinc; catalyticCurated1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • histone binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • metallopeptidase activity Source: UniProtKB
  • protein complex binding Source: UniProtKB
  • thiol-dependent ubiquitin-specific protease activity Source: UniProtKB
  • transcription coactivator activity Source: UniProtKB

GO - Biological processi

  • chromatin remodeling Source: UniProtKB
  • monoubiquitinated histone H2A deubiquitination Source: UniProtKB
  • positive regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  • regulation of cell migration Source: Ensembl
  • regulation of hair follicle development Source: Ensembl
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator, Hydrolase, Metalloprotease, Protease

Keywords - Biological processi

Transcription, Transcription regulation, Ubl conjugation pathway

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:HS08701-MONOMER.
ReactomeiR-HSA-5689901. Metalloprotease DUBs.

Protein family/group databases

MEROPSiM67.005.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2A deubiquitinase MYSM1 (EC:3.4.19.-)
Short name:
2A-DUB
Alternative name(s):
Myb-like, SWIRM and MPN domain-containing protein 1
Gene namesi
Name:MYSM1
Synonyms:KIAA1915
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:29401. MYSM1.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation1 Publication

GO - Cellular componenti

  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi669D → N: Abolishes H2A deubiquitination. 1 Publication1

Organism-specific databases

DisGeNETi114803.
OpenTargetsiENSG00000162601.
PharmGKBiPA142671301.

Polymorphism and mutation databases

BioMutaiMYSM1.
DMDMi74756898.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002340731 – 828Histone H2A deubiquitinase MYSM1Add BLAST828

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei110PhosphoserineCombined sources1
Modified residuei218PhosphoserineCombined sources1
Modified residuei236PhosphothreonineCombined sources1
Modified residuei242PhosphoserineCombined sources1
Modified residuei267PhosphoserineCombined sources1
Modified residuei340PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ5VVJ2.
MaxQBiQ5VVJ2.
PaxDbiQ5VVJ2.
PeptideAtlasiQ5VVJ2.
PRIDEiQ5VVJ2.

PTM databases

iPTMnetiQ5VVJ2.
PhosphoSitePlusiQ5VVJ2.

Expressioni

Gene expression databases

BgeeiENSG00000162601.
CleanExiHS_MYSM1.
GenevisibleiQ5VVJ2. HS.

Organism-specific databases

HPAiHPA054291.
HPA067133.

Interactioni

Subunit structurei

Component of a large chromatin remodeling complex, at least composed of MYSM1, PCAF, RBM10 and KIF11/TRIP5. Binds histones.1 Publication

GO - Molecular functioni

  • histone binding Source: UniProtKB
  • protein complex binding Source: UniProtKB

Protein-protein interaction databases

BioGridi125363. 13 interactors.
DIPiDIP-58941N.
IntActiQ5VVJ2. 1 interactor.
STRINGi9606.ENSP00000418734.

Structurei

Secondary structure

1828
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi123 – 135Combined sources13
Helixi140 – 147Combined sources8
Beta strandi148 – 150Combined sources3
Helixi152 – 166Combined sources15
Helixi388 – 391Combined sources4
Helixi395 – 398Combined sources4
Helixi406 – 423Combined sources18
Helixi430 – 432Combined sources3
Turni433 – 437Combined sources5
Beta strandi438 – 441Combined sources4
Helixi443 – 456Combined sources14
Beta strandi457 – 460Combined sources4
Beta strandi466 – 468Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CU7NMR-A117-181[»]
2DCENMR-A367-470[»]
ProteinModelPortaliQ5VVJ2.
SMRiQ5VVJ2.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5VVJ2.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini116 – 167SANTPROSITE-ProRule annotationAdd BLAST52
Domaini372 – 470SWIRMPROSITE-ProRule annotationAdd BLAST99
Domaini572 – 682MPNAdd BLAST111

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi656 – 669JAMM motifAdd BLAST14
Motifi774 – 778LXXLL motif5

Domaini

Binds double-stranded DNA via the SANT domain. The SWIRM domain does not bind double-stranded DNA.

Sequence similaritiesi

Belongs to the peptidase M67A family. MYSM1 subfamily.Curated
Contains 1 MPN (JAB/Mov34) domain.Curated
Contains 1 SANT domain.PROSITE-ProRule annotation
Contains 1 SWIRM domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG1279. Eukaryota.
KOG1555. Eukaryota.
COG1310. LUCA.
GeneTreeiENSGT00530000063766.
HOVERGENiHBG079486.
InParanoidiQ5VVJ2.
KOiK11865.
OMAiIPWTLDN.
OrthoDBiEOG091G052R.
PhylomeDBiQ5VVJ2.
TreeFamiTF324811.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR000555. JAMM/MPN+_dom.
IPR033497. MYSM1.
IPR001005. SANT/Myb.
IPR017884. SANT_dom.
IPR007526. SWIRM.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PANTHERiPTHR12802:SF20. PTHR12802:SF20. 2 hits.
PfamiPF01398. JAB. 1 hit.
PF00249. Myb_DNA-binding. 1 hit.
PF04433. SWIRM. 1 hit.
[Graphical view]
SMARTiSM00232. JAB_MPN. 1 hit.
SM00717. SANT. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 2 hits.
PROSITEiPS51293. SANT. 1 hit.
PS50934. SWIRM. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q5VVJ2-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MAAEEADVDI EGDVVAAAGA QPGSGENTAS VLQKDHYLDS SWRTENGLIP
60 70 80 90 100
WTLDNTISEE NRAVIEKMLL EEEYYLSKKS QPEKVWLDQK EDDKKYMKSL
110 120 130 140 150
QKTAKIMVHS PTKPASYSVK WTIEEKELFE QGLAKFGRRW TKISKLIGSR
160 170 180 190 200
TVLQVKSYAR QYFKNKVKCG LDKETPNQKT GHNLQVKNED KGTKAWTPSC
210 220 230 240 250
LRGRADPNLN AVKIEKLSDD EEVDITDEVD ELSSQTPQKN SSSDLLLDFP
260 270 280 290 300
NSKMHETNQG EFITSDSQEA LFSKSSRGCL QNEKQDETLS SSEITLWTEK
310 320 330 340 350
QSNGDKKSIE LNDQKFNELI KNCNKHDGRG IIVDARQLPS PEPCEIQKNL
360 370 380 390 400
NDNEMLFHSC QMVEESHEEE ELKPPEQEIE IDRNIIQEEE KQAIPEFFEG
410 420 430 440 450
RQAKTPERYL KIRNYILDQW EICKPKYLNK TSVRPGLKNC GDVNCIGRIH
460 470 480 490 500
TYLELIGAIN FGCEQAVYNR PQTVDKVRIR DRKDAVEAYQ LAQRLQSMRT
510 520 530 540 550
RRRRVRDPWG NWCDAKDLEG QTFEHLSAEE LAKRREEEKG RPVKSLKVPR
560 570 580 590 600
PTKSSFDPFQ LIPCNFFSEE KQEPFQVKVA SEALLIMDLH AHVSMAEVIG
610 620 630 640 650
LLGGRYSEVD KVVEVCAAEP CNSLSTGLQC EMDPVSQTQA SETLAVRGFS
660 670 680 690 700
VIGWYHSHPA FDPNPSLRDI DTQAKYQSYF SRGGAKFIGM IVSPYNRNNP
710 720 730 740 750
LPYSQITCLV ISEEISPDGS YRLPYKFEVQ QMLEEPQWGL VFEKTRWIIE
760 770 780 790 800
KYRLSHSSVP MDKIFRRDSD LTCLQKLLEC MRKTLSKVTN CFMAEEFLTE
810 820
IENLFLSNYK SNQENGVTEE NCTKELLM
Note: No experimental confirmation available.
Length:828
Mass (Da):95,032
Last modified:December 7, 2004 - v1
Checksum:i9EE635A30AF3B089
GO
Isoform 2 (identifier: Q5VVJ2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-253: Missing.

Note: No experimental confirmation available.
Show »
Length:575
Mass (Da):66,421
Checksum:iEC1B07CACB78B111
GO
Isoform 3 (identifier: Q5VVJ2-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-594: Missing.

Show »
Length:234
Mass (Da):26,716
Checksum:iB9F47C517543A052
GO

Sequence cautioni

The sequence BAB67808 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAG54377 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti231E → G in BAG54377 (PubMed:14702039).Curated1
Sequence conflicti540G → D in BAG54377 (PubMed:14702039).Curated1
Sequence conflicti782R → G in CAH18287 (PubMed:17974005).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_051814200C → S.Corresponds to variant rs17118103dbSNPEnsembl.1
Natural variantiVAR_051815264T → A.2 PublicationsCorresponds to variant rs12139511dbSNPEnsembl.1
Natural variantiVAR_051816825E → K.Corresponds to variant rs232777dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0182101 – 594Missing in isoform 3. 2 PublicationsAdd BLAST594
Alternative sequenceiVSP_0182111 – 253Missing in isoform 2. 1 PublicationAdd BLAST253

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS41343.1. [Q5VVJ2-1]
RefSeqiNP_001078956.1. NM_001085487.2. [Q5VVJ2-1]
XP_016855684.1. XM_017000195.1. [Q5VVJ2-2]
XP_016855685.1. XM_017000196.1. [Q5VVJ2-2]
XP_016855686.1. XM_017000197.1. [Q5VVJ2-2]
UniGeneiHs.744921.

Genome annotation databases

EnsembliENST00000472487; ENSP00000418734; ENSG00000162601. [Q5VVJ2-1]
ENST00000622766; ENSP00000478391; ENSG00000162601. [Q5VVJ2-3]
GeneIDi114803.
KEGGihsa:114803.
UCSCiuc001cza.4. human. [Q5VVJ2-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS41343.1. [Q5VVJ2-1]
RefSeqiNP_001078956.1. NM_001085487.2. [Q5VVJ2-1]
XP_016855684.1. XM_017000195.1. [Q5VVJ2-2]
XP_016855685.1. XM_017000196.1. [Q5VVJ2-2]
XP_016855686.1. XM_017000197.1. [Q5VVJ2-2]
UniGeneiHs.744921.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CU7NMR-A117-181[»]
2DCENMR-A367-470[»]
ProteinModelPortaliQ5VVJ2.
SMRiQ5VVJ2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125363. 13 interactors.
DIPiDIP-58941N.
IntActiQ5VVJ2. 1 interactor.
STRINGi9606.ENSP00000418734.

Protein family/group databases

MEROPSiM67.005.

PTM databases

iPTMnetiQ5VVJ2.
PhosphoSitePlusiQ5VVJ2.

Polymorphism and mutation databases

BioMutaiMYSM1.
DMDMi74756898.

Proteomic databases

EPDiQ5VVJ2.
MaxQBiQ5VVJ2.
PaxDbiQ5VVJ2.
PeptideAtlasiQ5VVJ2.
PRIDEiQ5VVJ2.

Protocols and materials databases

DNASUi114803.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000472487; ENSP00000418734; ENSG00000162601. [Q5VVJ2-1]
ENST00000622766; ENSP00000478391; ENSG00000162601. [Q5VVJ2-3]
GeneIDi114803.
KEGGihsa:114803.
UCSCiuc001cza.4. human. [Q5VVJ2-1]

Organism-specific databases

CTDi114803.
DisGeNETi114803.
GeneCardsiMYSM1.
H-InvDBHIX0000634.
HGNCiHGNC:29401. MYSM1.
HPAiHPA054291.
HPA067133.
MIMi612176. gene.
neXtProtiNX_Q5VVJ2.
OpenTargetsiENSG00000162601.
PharmGKBiPA142671301.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1279. Eukaryota.
KOG1555. Eukaryota.
COG1310. LUCA.
GeneTreeiENSGT00530000063766.
HOVERGENiHBG079486.
InParanoidiQ5VVJ2.
KOiK11865.
OMAiIPWTLDN.
OrthoDBiEOG091G052R.
PhylomeDBiQ5VVJ2.
TreeFamiTF324811.

Enzyme and pathway databases

BioCyciZFISH:HS08701-MONOMER.
ReactomeiR-HSA-5689901. Metalloprotease DUBs.

Miscellaneous databases

EvolutionaryTraceiQ5VVJ2.
GenomeRNAii114803.
PROiQ5VVJ2.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000162601.
CleanExiHS_MYSM1.
GenevisibleiQ5VVJ2. HS.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR000555. JAMM/MPN+_dom.
IPR033497. MYSM1.
IPR001005. SANT/Myb.
IPR017884. SANT_dom.
IPR007526. SWIRM.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PANTHERiPTHR12802:SF20. PTHR12802:SF20. 2 hits.
PfamiPF01398. JAB. 1 hit.
PF00249. Myb_DNA-binding. 1 hit.
PF04433. SWIRM. 1 hit.
[Graphical view]
SMARTiSM00232. JAB_MPN. 1 hit.
SM00717. SANT. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 2 hits.
PROSITEiPS51293. SANT. 1 hit.
PS50934. SWIRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiMYSM1_HUMAN
AccessioniPrimary (citable) accession number: Q5VVJ2
Secondary accession number(s): A8KA54
, B3KX65, Q68DD3, Q6AI53, Q7Z3G8, Q96PX3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 2, 2006
Last sequence update: December 7, 2004
Last modified: November 30, 2016
This is version 134 of the entry and version 1 of the sequence. [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, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: 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. Peptidase families
    Classification of peptidase families and list of entries
  7. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.