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Entry version 64 (26 Feb 2020)
Sequence version 1 (23 Jan 2007)
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Protein

Ubiquitin carboxyl-terminal hydrolase 47

Gene

usp47

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at transcript leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>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). EC:3.4.19.12

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei183NucleophilePROSITE-ProRule annotation1
Active sitei488Proton acceptorPROSITE-ProRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHydrolase, Protease, Thiol protease
Biological processDNA damage, DNA repair, Ubl conjugation pathway

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-XTR-5689880 Ub-specific processing proteases

Protein family/group databases

MEROPS protease database

More...
MEROPSi
C19.055

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>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
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:usp47
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri8364 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000008143 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Unassembled WGS sequence

Organism-specific databases

Xenopus laevis and tropicalis biology and genomics resource

More...
Xenbasei
XB-GENE-5760041 usp47

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004083591 – 1354Ubiquitin carboxyl-terminal hydrolase 47Add BLAST1354

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
A1A5G2

PRoteomics IDEntifications database

More...
PRIDEi
A1A5G2

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
8364.ENSXETP00000029972

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini174 – 549USPAdd BLAST376

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the peptidase C19 family. USP47 subfamily.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG4598 Eukaryota
COG5077 LUCA

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
A1A5G2

KEGG Orthology (KO)

More...
KOi
K11857

Database of Orthologous Groups

More...
OrthoDBi
77113at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR038765 Papain-like_cys_pep_sf
IPR001394 Peptidase_C19_UCH
IPR018200 USP_CS
IPR028889 USP_dom

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00443 UCH, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF54001 SSF54001, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00972 USP_1, 1 hit
PS00973 USP_2, 1 hit
PS50235 USP_3, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

A1A5G2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRPGEESHLV PKEIENAADE PRVLCIVQDT TSCKNINERI TLNLPASTSV
60 70 80 90 100
KQLYEDVSSK AGYVSGTFSL MWGNGASNMV DMAALDPTPD RTLQEAGFEA
110 120 130 140 150
GKKNFLHLTD KNGEQPQLAS DESGTADSSG LDDSTQEKFI GPLPREESVA
160 170 180 190 200
CTSDYVSQNY SYSSLLSKSD TGYVGLVNQA MTCYLNSLLQ TLFMTPEFRN
210 220 230 240 250
ALYKWEFEES EEDPVSSIPY QLQRLFVLLQ TSKKRAIETT DVTRSFGWDS
260 270 280 290 300
SEAWQQHDVQ ELCRVMFDAL EQKWKQTEQA DLINQLYQGK LKDYVKCLEC
310 320 330 340 350
GYESWRIDTF LDIPLVIRPF GSNTAFGSME EALQAFIQPE TLDGPNQYFC
360 370 380 390 400
ERCKRKCDAR KGLKFLHFPY LLTLQLKRFD FDYTSMHRIK LNDRMTFPDE
410 420 430 440 450
LDMSPFIDVE DEKSPQTDSC TDSGAENEGS CHSDQMSNDF STDDAVDEGI
460 470 480 490 500
CLETNSNIEK LNKSVSEKNS LYELFSVMVH SGSAAGGHYY ACIKSFADGQ
510 520 530 540 550
WYSFNDQHVS RITQEDIKKT YGGSTGNRGY YSSAFASSTN AYMLMYRLKN
560 570 580 590 600
PARNAKFPEA IEFPEHIKLL VQKEQEQEEQ EKRQREIERN TCKLKLFCMH
610 620 630 640 650
PVKQIMMESK LEVHKDKTMK EAVEIAHKLM DLEGVISLDC CRLVKYDEFH
660 670 680 690 700
DYLERSYEDE EDRTMGYLLG GVKSSYMFDL LLETKRSDQV FQSYKPGEVM
710 720 730 740 750
VKVYVVDLKT ETVAPPVSVR AYLSQTIIEF KQLISKSVDL LPDTMRVVLE
760 770 780 790 800
RCYNDLRLLN VANKTLKAEG FFRSNKVFVE SSDSLDYQLV FTDSHLWKLL
810 820 830 840 850
DRHANTIRLY VSLPEHTPQT ARSVGPKGGG DSNLSEDYCS RVKGNVKSVD
860 870 880 890 900
AILEESTEKL KSLSLQQHQD GGNGDSSKST EGSDFENIDS PLNEADSGSA
910 920 930 940 950
DNRELENRIL PADPENNFQP EERSDSDVNN DRSTSSVDSD ILSSSHSSDT
960 970 980 990 1000
LCNADSAPIP LANGLDSHSI TSSRRSKAND GKKETWDTAE EDSGTDSEYD
1010 1020 1030 1040 1050
ESGKSRGEAQ YMYFKAEPHA GEGCLGEGNK CLLVSVDKRI TLAAFKQQLE
1060 1070 1080 1090 1100
SFVGVSSSQF KVFRVYASNQ EFESVRLNET LSSFSDDNKI TIRLGRALKK
1110 1120 1130 1140 1150
GEYRVKIFQL LVNEPEPCKF LLDAVFSKGM TVRQSKEELL PLLRDQCGLD
1160 1170 1180 1190 1200
LSIDRFRLRK KTWKNPGTVF LDYHVYENES ISSSWEVFLE ALDETEKMKS
1210 1220 1230 1240 1250
MSQLSLFTKR WRPSELKLDP FKEIVMESNS VDELRDKICD ISAIPLENLE
1260 1270 1280 1290 1300
FAKGRGTFPC DISVLEIHQD LDWNPKVSTL NAWPLYISDD GAVIFYRDKM
1310 1320 1330 1340 1350
EELVELTDEQ RNDLAKKESS RLQKTGHRVT YSPRKEKALK IYLDGPSNKD

SSQD
Length:1,354
Mass (Da):153,719
Last modified:January 23, 2007 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iE59BABE209E22310
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
BC128636 mRNA Translation: AAI28637.1

NCBI Reference Sequences

More...
RefSeqi
NP_001090710.1, NM_001097241.1

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
100036690

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
xtr:100036690

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC128636 mRNA Translation: AAI28637.1
RefSeqiNP_001090710.1, NM_001097241.1

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000029972

Protein family/group databases

MEROPSiC19.055

Proteomic databases

PaxDbiA1A5G2
PRIDEiA1A5G2

Genome annotation databases

GeneIDi100036690
KEGGixtr:100036690

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
55031
XenbaseiXB-GENE-5760041 usp47

Phylogenomic databases

eggNOGiKOG4598 Eukaryota
COG5077 LUCA
InParanoidiA1A5G2
KOiK11857
OrthoDBi77113at2759

Enzyme and pathway databases

ReactomeiR-XTR-5689880 Ub-specific processing proteases

Family and domain databases

InterProiView protein in InterPro
IPR038765 Papain-like_cys_pep_sf
IPR001394 Peptidase_C19_UCH
IPR018200 USP_CS
IPR028889 USP_dom
PfamiView protein in Pfam
PF00443 UCH, 1 hit
SUPFAMiSSF54001 SSF54001, 1 hit
PROSITEiView protein in PROSITE
PS00972 USP_1, 1 hit
PS00973 USP_2, 1 hit
PS50235 USP_3, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiUBP47_XENTR
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: A1A5G2
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 3, 2011
Last sequence update: January 23, 2007
Last modified: February 26, 2020
This is version 64 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Peptidase families
    Classification of peptidase families and list of entries
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