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Q8BY87

- UBP47_MOUSE

UniProt

Q8BY87 - UBP47_MOUSE

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Protein

Ubiquitin carboxyl-terminal hydrolase 47

Gene

Usp47

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Ubiquitin-specific protease that specifically deubiquitinates monoubiquitinated DNA polymerase beta (POLB), stabilizing POLB thereby playing a role in base-excision repair (BER) (By similarity). Acts as a regulator of cell growth and genome integrity. May also indirectly regulates CDC25A expression at a transcriptional level.By similarity1 Publication

Catalytic activityi

Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei197 – 1971NucleophilePROSITE-ProRule annotation
Active sitei503 – 5031Proton acceptorPROSITE-ProRule annotation

GO - Molecular functioni

  1. ubiquitin-specific protease activity Source: UniProtKB

GO - Biological processi

  1. base-excision repair Source: UniProtKB
  2. cellular response to DNA damage stimulus Source: UniProtKB
  3. cellular response to UV Source: UniProtKB
  4. monoubiquitinated protein deubiquitination Source: UniProtKB
  5. negative regulation of cysteine-type endopeptidase activity involved in apoptotic process Source: UniProtKB
  6. negative regulation of G2/M transition of mitotic cell cycle Source: UniProtKB
  7. negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage Source: MGI
  8. negative regulation of transcription, DNA-templated Source: UniProtKB
  9. positive regulation of cell growth Source: UniProtKB
  10. response to drug Source: UniProtKB
  11. ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

DNA damage, DNA repair, Ubl conjugation pathway

Protein family/group databases

MEROPSiC19.055.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 47 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 47
Ubiquitin thioesterase 47
Ubiquitin-specific-processing protease 47
Gene namesi
Name:Usp47
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 7

Organism-specific databases

MGIiMGI:1922246. Usp47.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB
  2. SCF ubiquitin ligase complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13761376Ubiquitin carboxyl-terminal hydrolase 47PRO_0000080677Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei122 – 1221N6-acetyllysineBy similarity
Modified residuei832 – 8321PhosphoserineBy similarity
Modified residuei911 – 9111Phosphoserine1 Publication
Modified residuei1016 – 10161Phosphothreonine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ8BY87.
PaxDbiQ8BY87.
PRIDEiQ8BY87.

Expressioni

Gene expression databases

BgeeiQ8BY87.
CleanExiMM_USP47.
GenevestigatoriQ8BY87.

Interactioni

Subunit structurei

Interacts with BTRC and FBXW11. Interacts with POLB (By similarity).By similarity

Protein-protein interaction databases

IntActiQ8BY87. 1 interaction.
MINTiMINT-4110662.
STRINGi10090.ENSMUSP00000081757.

Structurei

3D structure databases

ProteinModelPortaliQ8BY87.
SMRiQ8BY87. Positions 182-596.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini188 – 564377USPAdd
BLAST

Sequence similaritiesi

Belongs to the peptidase C19 family. USP47 subfamily.Curated
Contains 1 USP domain.Curated

Phylogenomic databases

eggNOGiCOG5077.
GeneTreeiENSGT00760000119158.
HOVERGENiHBG058854.
InParanoidiQ8BY87.
KOiK11857.
OMAiLCEISGI.
OrthoDBiEOG7M3HZD.
PhylomeDBiQ8BY87.
TreeFamiTF314142.

Family and domain databases

InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR000626. Ubiquitin-like.
IPR029071. Ubiquitin-rel_dom.
IPR028889. UCH/PAN2.
[Graphical view]
PfamiPF14560. Ubiquitin_2. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.
PROSITEiPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q8BY87-1) [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
MVPGEENQLV PKEDVFWRCR QNIFDEMKKK FLQIENAAEE PRVLCIIQDT
60 70 80 90 100
TNSKTVSERI TLNLPASTPV RKLFEDVANK VGYINGTFDL TRENGVTTAD
110 120 130 140 150
MAPLDHTSDK SLLDANFEPG KKNFLHLTDK DGEPPQMLLE DSNNVDDSVH
160 170 180 190 200
DRFIGPLPRE GSVASTNDYV SQNYSYSSIL NKSETGYVGL VNQAMTCYLN
210 220 230 240 250
SLLQTLFMTP EFRNALYKWE FEDSEEDPVT SIPYQLQRLF VLLQTSKKRA
260 270 280 290 300
IETTDVTRSF GWDSSEAWQQ HDVQELCRVM FDALEQKWKQ TEQADLINEL
310 320 330 340 350
YQGKLKDYVR CLECGYEGWR IDTYLDIPLV IRPYGSSQAF ASVEEALHAF
360 370 380 390 400
IQPEILDGPN QYFCERCKKK CDARKGLRFL HFPYLLTLQL KRFDFDYTTM
410 420 430 440 450
HRIKLNDRMS FPEELDMSTF IDIEDEKSPQ TESCTDSGAE NEGSCHSDQM
460 470 480 490 500
SNDFSTDDAV DEGICLESSS GSEKISKPGL EKNSLMYELF SVMVHSGSAA
510 520 530 540 550
GGHYYACIKS FSDDQWYSFN DQHVSRITQE DIKKTHGGSS GSRGYYSSAF
560 570 580 590 600
ASSTNAYMLI YRLKDPTRNA KFLEVDEYPE HIKNLVQKER ELEEQEKRQR
610 620 630 640 650
EIERNTCKIK LFCLHPVKQV MMENKLEVHK DKTLKEAVEM AYKMMDLEDV
660 670 680 690 700
IPLDCCRLVK YDEFHDYLER SYEGEEDTPM GLLLGGVKST YMFDLLLETR
710 720 730 740 750
KPDQIFQSYK PGEVMVKVHV VDLKAETVAA PVTVRAYLNQ TVTEFKQLIS
760 770 780 790 800
KATHLPADSM RIVLERCYND LRLLSMPSKT LKAEGFFRSN KVFVESSETV
810 820 830 840 850
DHQAAFTDSH LWKLLDRHAN TIRLFVLLPE QSPGSYSKRT AYQKAGGDSG
860 870 880 890 900
NVDDDCERVK GPAGNLKSVD AILEESTEKL KSLSLQQQQQ DGDNGDSSKS
910 920 930 940 950
TETSDFENIE SPLNERGSST SVDNRELEQH IQTSDPENFQ SEERSDSDVN
960 970 980 990 1000
NDRSTSSVDS DILSSSHSSD TLCNADSAQI PLANGLDSHS ITSSRRTKAN
1010 1020 1030 1040 1050
EGKKETWDTA EEDSGTDSEY DESGKSRGDM QYMYFKADPY TADEGSGEGH
1060 1070 1080 1090 1100
KWLMVHVDKR ITLAAFKQHL EPFVGVLSSH FKVFRVYTSN QEFETVRLNE
1110 1120 1130 1140 1150
TLSSFSDDNK ITIRLGRALK KGEYRVKVCQ LLVNEQEPCK FLLDAVFAKG
1160 1170 1180 1190 1200
MTVRQSKEEL IPQLREQCGL DLSIDRFRLR KKTWKNPGTV FLDYHIYEED
1210 1220 1230 1240 1250
INISSNWEVF LEVLDGVEKM KSMSQLAILT RRWRPAEMKL DPFQELVLES
1260 1270 1280 1290 1300
NSVDELREKL SEISGIPLED IEFAKGRGTF PCDISVLDIH QDLDWNPKVS
1310 1320 1330 1340 1350
TLNVWPLYIC DDGAVIFYRD RTEEVMELTD EQRNELMKKE SSRLQKTGHR
1360 1370
VTYSPRKEKA LKIYLDGAPN KDVAQD
Length:1,376
Mass (Da):157,455
Last modified:July 5, 2005 - v2
Checksum:i09729C3B691C3709
GO
Isoform 2 (identifier: Q8BY87-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     14-33: Missing.

Note: No experimental confirmation available.

Show »
Length:1,356
Mass (Da):154,841
Checksum:i8DB6A4751B43840C
GO

Sequence cautioni

The sequence BAC38411.1 differs from that shown. Reason: Frameshift at position 109.
The sequence BAC27179.1 differs from that shown. Reason: Erroneous initiation.
The sequence BAC27195.1 differs from that shown. Reason: Erroneous initiation.

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti341 – 3411A → G in BAC38411. (PubMed:16141072)Curated
Sequence conflicti376 – 3794GLRF → VRDL in BAC38411. (PubMed:16141072)Curated
Sequence conflicti562 – 5621R → G in AAI08426. (PubMed:15489334)Curated
Sequence conflicti1174 – 11741I → T in AAI08426. (PubMed:15489334)Curated
Sequence conflicti1178 – 11781R → H in BAC27195. (PubMed:16141072)Curated
Sequence conflicti1200 – 12034DINI → IYNF in BAC40073. (PubMed:16141072)Curated
Sequence conflicti1257 – 12571R → Q in BAC27195. (PubMed:16141072)Curated
Sequence conflicti1299 – 13013VST → TRP in AAH12722. (PubMed:15489334)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei14 – 3320Missing in isoform 2. 1 PublicationVSP_014416Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AK030909 mRNA. Translation: BAC27179.1. Different initiation.
AK030963 mRNA. Translation: BAC27195.1. Different initiation.
AK041541 mRNA. Translation: BAC30979.1.
AK082114 mRNA. Translation: BAC38411.1. Frameshift.
AK087981 mRNA. Translation: BAC40073.1.
AK131138 mRNA. Translation: BAD21388.1.
BC012722 mRNA. Translation: AAH12722.1.
BC024117 mRNA. Translation: AAH24117.1.
BC089364 mRNA. Translation: AAH89364.1.
BC108425 mRNA. Translation: AAI08426.1.
CCDSiCCDS40089.1. [Q8BY87-2]
RefSeqiNP_598519.2. NM_133758.3. [Q8BY87-2]
NP_796223.2. NM_177249.3. [Q8BY87-1]
UniGeneiMm.16974.

Genome annotation databases

EnsembliENSMUST00000106653; ENSMUSP00000102264; ENSMUSG00000059263. [Q8BY87-2]
GeneIDi74996.
KEGGimmu:74996.
UCSCiuc009jgg.2. mouse. [Q8BY87-2]
uc009jgh.2. mouse. [Q8BY87-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AK030909 mRNA. Translation: BAC27179.1 . Different initiation.
AK030963 mRNA. Translation: BAC27195.1 . Different initiation.
AK041541 mRNA. Translation: BAC30979.1 .
AK082114 mRNA. Translation: BAC38411.1 . Frameshift.
AK087981 mRNA. Translation: BAC40073.1 .
AK131138 mRNA. Translation: BAD21388.1 .
BC012722 mRNA. Translation: AAH12722.1 .
BC024117 mRNA. Translation: AAH24117.1 .
BC089364 mRNA. Translation: AAH89364.1 .
BC108425 mRNA. Translation: AAI08426.1 .
CCDSi CCDS40089.1. [Q8BY87-2 ]
RefSeqi NP_598519.2. NM_133758.3. [Q8BY87-2 ]
NP_796223.2. NM_177249.3. [Q8BY87-1 ]
UniGenei Mm.16974.

3D structure databases

ProteinModelPortali Q8BY87.
SMRi Q8BY87. Positions 182-596.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q8BY87. 1 interaction.
MINTi MINT-4110662.
STRINGi 10090.ENSMUSP00000081757.

Protein family/group databases

MEROPSi C19.055.

Proteomic databases

MaxQBi Q8BY87.
PaxDbi Q8BY87.
PRIDEi Q8BY87.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000106653 ; ENSMUSP00000102264 ; ENSMUSG00000059263 . [Q8BY87-2 ]
GeneIDi 74996.
KEGGi mmu:74996.
UCSCi uc009jgg.2. mouse. [Q8BY87-2 ]
uc009jgh.2. mouse. [Q8BY87-1 ]

Organism-specific databases

CTDi 55031.
MGIi MGI:1922246. Usp47.

Phylogenomic databases

eggNOGi COG5077.
GeneTreei ENSGT00760000119158.
HOVERGENi HBG058854.
InParanoidi Q8BY87.
KOi K11857.
OMAi LCEISGI.
OrthoDBi EOG7M3HZD.
PhylomeDBi Q8BY87.
TreeFami TF314142.

Miscellaneous databases

NextBioi 341978.
PROi Q8BY87.
SOURCEi Search...

Gene expression databases

Bgeei Q8BY87.
CleanExi MM_USP47.
Genevestigatori Q8BY87.

Family and domain databases

InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR000626. Ubiquitin-like.
IPR029071. Ubiquitin-rel_dom.
IPR028889. UCH/PAN2.
[Graphical view ]
Pfami PF14560. Ubiquitin_2. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view ]
SUPFAMi SSF54236. SSF54236. 1 hit.
PROSITEi PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-379 (ISOFORM 1), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-591 (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 637-1376 (ISOFORMS 1/2).
    Strain: C57BL/6J.
    Tissue: Cerebellum and Thymus.
  2. "Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Kitamura H., Nakagawa T., Nagase T., Ohara O., Koga H.
    DNA Res. 11:127-135(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 395-1376.
    Tissue: Brain.
  3. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C3H/He and Czech II.
    Tissue: Brain, Liver, Mammary gland and Mesenchymal stem cell.
  4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-911, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic brain.
  5. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-1016, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  6. "The ubiquitin-specific protease USP47 is a novel beta-TRCP interactor regulating cell survival."
    Peschiaroli A., Skaar J.R., Pagano M., Melino G.
    Oncogene 29:1384-1393(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiUBP47_MOUSE
AccessioniPrimary (citable) accession number: Q8BY87
Secondary accession number(s): Q32NY0
, Q5EBP2, Q6KAR9, Q80V06, Q8BHU1, Q8BI15, Q8BI16, Q8BUW4, Q91X25
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 5, 2005
Last sequence update: July 5, 2005
Last modified: October 29, 2014
This is version 105 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3