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Protein

Histone H2A deubiquitinase MYSM1

Gene

MYSM1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -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; catalyticPROSITE-ProRule annotation1
Metal bindingi658Zinc; catalyticPROSITE-ProRule annotation1
Metal bindingi669Zinc; catalyticPROSITE-ProRule annotation1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • histone binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • metallopeptidase activity Source: UniProtKB
  • protein-containing complex binding Source: UniProtKB
  • RNA polymerase II transcription factor activity, sequence-specific DNA binding Source: NTNU_SB
  • thiol-dependent ubiquitin-specific protease activity Source: UniProtKB
  • thiol-dependent ubiquitinyl hydrolase activity Source: UniProtKB
  • transcription coactivator activity Source: UniProtKB

GO - Biological processi

  • chromatin remodeling Source: UniProtKB
  • monoubiquitinated histone H2A deubiquitination Source: UniProtKB
  • pigmentation Source: Ensembl
  • positive regulation of transcription by RNA polymerase II Source: UniProtKB
  • regulation of cell migration Source: Ensembl
  • regulation of hair follicle development Source: Ensembl
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionActivator, Chromatin regulator, DNA-binding, Hydrolase, Metalloprotease, Protease
Biological processTranscription, Transcription regulation, Ubl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

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

EuPathDBiHostDB:ENSG00000162601.9
HGNCiHGNC:29401 MYSM1
MIMi612176 gene
neXtProtiNX_Q5VVJ2

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

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
Cross-linki187Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei218PhosphoserineCombined sources1
Modified residuei236PhosphothreonineCombined sources1
Modified residuei242PhosphoserineCombined sources1
Modified residuei267PhosphoserineCombined sources1
Modified residuei340PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

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-protein interaction databases

BioGridi125363, 14 interactors
DIPiDIP-58941N
IntActiQ5VVJ2, 4 interactors
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
Domaini577 – 709MPNPROSITE-ProRule annotationAdd BLAST133

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi656 – 669JAMM motifPROSITE-ProRule annotationAdd 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

Phylogenomic databases

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

Family and domain databases

CDDicd00167 SANT, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR000555 JAMM/MPN+_dom
IPR037518 MPN
IPR033497 MYSM1
IPR001005 SANT/Myb
IPR017884 SANT_dom
IPR007526 SWIRM
PANTHERiPTHR12802:SF67 PTHR12802:SF67, 1 hit
PfamiView protein in Pfam
PF01398 JAB, 1 hit
PF00249 Myb_DNA-binding, 1 hit
PF04433 SWIRM, 1 hit
SMARTiView protein in SMART
SM00232 JAB_MPN, 1 hit
SM00717 SANT, 1 hit
SUPFAMiSSF46689 SSF46689, 2 hits
PROSITEiView protein in PROSITE
PS50249 MPN, 1 hit
PS51293 SANT, 1 hit
PS50934 SWIRM, 1 hit

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 dbSNP:rs17118103Ensembl.1
Natural variantiVAR_051815264T → A2 PublicationsCorresponds to variant dbSNP:rs12139511Ensembl.1
Natural variantiVAR_051816825E → K. Corresponds to variant dbSNP:rs232777Ensembl.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
AL035411 Genomic DNA No translation available.
AL450024 Genomic DNA No translation available.
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

Similar proteinsi

Entry informationi

Entry nameiMYSM1_HUMAN
AccessioniPrimary (citable) accession number: Q5VVJ2
Secondary accession number(s): A8KA54
, B3KX65, Q68DD3, Q6AI53, Q7Z3G8, Q96PX3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 2, 2006
Last sequence update: December 7, 2004
Last modified: May 23, 2018
This is version 147 of the entry and version 1 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, Reference proteome

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