Histone H2A deubiquitinase MYSM1 - Danio rerio (Zebrafish)

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Reviewed, UniProtKB/Swiss-Prot Q5RGA4 (MYSM1_DANRE)

Last modified November 3, 2009. Version 40. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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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

Name:	mysm1
ORF Names:	si:ch211-59d15.8

Organism

Danio rerio (Zebrafish) (Brachydanio rerio)

Taxonomic identifier

7955 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Actinopterygii › Neopterygii › Teleostei › Ostariophysi › Cypriniformes › Cyprinidae › Danio

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Protein attributes

Sequence length	822 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

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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 By similarity.
Catalytic activity	Ubiquitin C-terminal thioester + H₂O = ubiquitin + a thiol.
Subcellular location	Nucleus By similarity.
Domain	Binds double-stranded DNA via the SANT domain. The SWIRM domain does not bind double-stranded DNA By similarity.
Sequence similarities	Belongs to the peptidase M67A family. MYSM1 subfamily. Contains 1 MPN (JAB/Mov34) domain. Contains 1 SANT domain. Contains 1 SWIRM domain.
Sequence caution	The sequence AAI34240.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence AAI34240.1 differs from that shown. Reason: Miscellaneous discrepancy. Contaminating sequence. Potential poly-A sequence. The sequence CAI12031.1 differs from that shown. Reason: Erroneous gene model prediction.

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Ontologies

Keywords
Biological process	Transcription Transcription regulation Ubl conjugation pathway
Cellular component	Nucleus
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Activator Chromatin regulator Hydrolase Metalloprotease Protease
Gene Ontology (GO)
Biological process	histone deubiquitination Inferred from sequence or structural similarity. Source: UniProtKB modification-dependent protein catabolic process Inferred from electronic annotation. Source: UniProtKB-KW positive regulation of transcription, DNA-dependent Inferred from sequence or structural similarity. Source: UniProtKB transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	chromatin remodeling complex Inferred from sequence or structural similarity. Source: UniProtKB
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW histone binding Inferred from sequence or structural similarity. Source: UniProtKB metallopeptidase activity Inferred from sequence or structural similarity. Source: UniProtKB transcription coactivator activity Inferred from sequence or structural similarity. Source: UniProtKB ubiquitin thiolesterase activity Inferred from sequence or structural similarity. Source: UniProtKB ubiquitin-specific protease activity Inferred from sequence or structural similarity. Source: UniProtKB zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 822

822

Histone H2A deubiquitinase MYSM1

PRO_0000373925

Regions

Domain

97 – 148

SANT

Domain

313 – 411

SWIRM

Motif

596 – 609

JAMM motif

Sites

Metal binding

596

Zinc; catalytic By similarity

Metal binding

598

Zinc; catalytic By similarity

Metal binding

609

Zinc; catalytic By similarity

Experimental info

Sequence conflict

R → K in AAI34240. Ref.1

Sequence conflict

S → G in AAI34240. Ref.1

Sequence conflict

208

R → C in AAI34240. Ref.1

Sequence conflict

221

R → S in AAI34240. Ref.1

Sequence conflict

242

A → V in AAI34240. Ref.1

Sequence conflict

246

F → I in AAI34240. Ref.1

Sequence conflict

295

A → G in AAI34240. Ref.1

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Sequences

Sequence

Length

Mass (Da)

Tools

Q5RGA4-1 [UniParc].

Last modified May 5, 2009. Version 2.
Checksum: D6F0BB5E0266BA5A
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FASTA

822

92,803

        10         20         30         40         50         60 
MADELDVVDI EGDECDEIVG DLSSAEILQD QYLQSAWRTN SSVLPWTLDS SISDENRQVI 

        70         80         90        100        110        120 
ESMLLEEQYY FASKKAPKVA WTNEKTKVKK PLVKSSAAQT RWAEEEKELF EKGLAQFGRR 

       130        140        150        160        170        180 
WTKIAKLIGT RTVLQVKSYA KQYFKNKPKA EPAAEVTSAN VTSVSSIQPH VSALTNAVRI 

       190        200        210        220        230        240 
ERLSDDEDVD ITDDFSDSEL QSKKQPERSV SPDCNHHGEL RPSLSDALLH LPSESTAADG 

       250        260        270        280        290        300 
QADPDFSEDT EIHHSEIDSE AVEESGNPFI NLDSPSKHSL TGEEETELAD KCESAECLEE 

       310        320        330        340        350        360 
EVEDQEEDEE EELRAPEQEV ELDLNTITEE EKQAISEFFE GRPSKTPERY LKIRNYILDQ 

       370        380        390        400        410        420 
WRRSKPKYLN KTSVRPGLKN CGDVNCIGRI HTYLELIGAI NFNCDQAIYN RPRLVDRSRL 

       430        440        450        460        470        480 
KESKDSLEAY HLAQRLQSMR TRKRRIRDVW GNWCDAKDLE GQTYEHLSAE ELAIRREEMK 

       490        500        510        520        530        540 
KKGPRPSKLP KQRGSFDPFQ LIPCKTFGEE RQEPYSVIVC AEALIVMDIH AHVSMGEVIG 

       550        560        570        580        590        600 
LLGGTYEEED KVLKICSAEP CNSLSTGLQC EMDPVSQTQA SEVLGVKGLS VVGWYHSHPA 

       610        620        630        640        650        660 
FDPNPSLRDI DTQAKYQSYF SRGGAPFIGM IVSPYNPSNS SPQSQSTCLL VQEEPGPSGS 

       670        680        690        700        710        720 
HKFPYQFNMQ CSAEPPDWSE VMRRAEWVVF KYRLCHGSVP MDRLFRRDSS LTCLEKMLLS 

       730        740        750        760        770        780 
IRTVLERLSE VDIETFLVQL ESLFNTHFLS ETGSSSTHLY ETATQPQLLS FLSSEPISSS 

       790        800        810        820 
ATEETSDGHD EPNTTGPDKL EQSCVEEEHD ETVMQSTSAE TV

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References

[1]	The Danio rerio sequencing project at the Sanger Institute Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Tuebingen.
[2]	NIH - Zebrafish Gene Collection (ZGC) project Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-457. Tissue: Embryo.

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Cross-references

Sequence databases
	BX942841 Genomic DNA. Translation: CAI12031.1. Sequence problems. BC134239 mRNA. Translation: AAI34240.1. Sequence problems.
IPI	IPI00494402.
RefSeq	NP_001157501.1.
UniGene	Dr.108451
3D structure databases
SMR	Q5RGA4. Positions 101-149, 309-411.
ModBase	Search...
Genome annotation databases
Ensembl	ENSDART00000044655; ENSDARP00000044654; ENSDARG00000034693; Danio rerio. [Genome view]
GeneID	561225.
KEGG	dre:561225.
Organism-specific databases
ZFIN	ZDB-GENE-041014-28. si:ch211-59d15.8.
Phylogenomic databases
HOVERGEN	Q5RGA4.
OMA	VPMDKIF.
Gene expression databases
Bgee	Q5RGA4.
Family and domain databases
InterPro	IPR000555. Mov34_MPN_PAD1. IPR014778. Myb_DNA-bd. IPR001005. SANT_DNA-bd. IPR017884. SANT_eukarya. IPR007526. SWIRM. [Graphical view]
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...

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Entry information

Entry name

MYSM1_DANRE

Accession

Primary (citable) accession number: Q5RGA4
Secondary accession number(s): A3KPA5

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 5, 2009
Last sequence update:	May 5, 2009
Last modified:	November 3, 2009
This is version 40 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Zebrafish annotation project

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Relevant documents

Peptidase families

Classification of peptidase families and list of entries

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents