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P38187 (UBP13_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 113. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Ubiquitin carboxyl-terminal hydrolase 13

EC=3.4.19.12
Alternative name(s):
Deubiquitinating enzyme 13
Ubiquitin thioesterase 13
Ubiquitin-specific-processing protease 13
Gene names
Name:UBP13
Ordered Locus Names:YBL067C
ORF Names:YBL0621
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length747 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

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).

Miscellaneous

Present with 125 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the peptidase C19 family.

Contains 1 USP domain.

Sequence caution

The sequence CAA84887.1 differs from that shown. Reason: Frameshift at position 663.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 747747Ubiquitin carboxyl-terminal hydrolase 13
PRO_0000080598

Regions

Domain140 – 668529USP

Sites

Active site1491Nucleophile By similarity
Active site6191Proton acceptor By similarity

Amino acid modifications

Modified residue1981Phosphoserine Ref.5

Experimental info

Sequence conflict1801Q → H in CAA84887. Ref.1

Sequences

Sequence LengthMass (Da)Tools
P38187 [UniParc].

Last modified July 27, 2011. Version 3.
Checksum: 817DE2F89ED8EEA4

FASTA74783,856
        10         20         30         40         50         60 
MIRRWLTISK SGKKKKAVND TITEEVEKVD FKPVNHDIND ELCYSESSDN PSSSLFVSNL 

        70         80         90        100        110        120 
DTKETFLNED NNLQISSGLD YSSETCNQGS NYSQDGIFYI SNAKAINAYG GIITQGPEAP 

       130        140        150        160        170        180 
ILAMKVSDSM PYGDGSNKVF GYENFGNTCY CNSVLQCLYN LSSLRENILQ FPKKSRESDQ 

       190        200        210        220        230        240 
PRKKEMRGKK PRIFTEASFE KSIAGTNGHL PNPKPQSVDD GKPTPVNSVN SNTAGPSEKK 

       250        260        270        280        290        300 
SKFFKSFSAK HVQDNNKKEG SPAILTTGKP SSRPQDAPPL IVETPNEPGA PSRLSFENVT 

       310        320        330        340        350        360 
DRPPDVPRKI IVGRVLNYEN PSRGSSNSNN LDLKGESNSS LSTPLDKKDT RRSSSSSQIS 

       370        380        390        400        410        420 
PEHRKKSALI RGPVLNIDHS LNGSDKATLY SSLRDIFECI TENTYLTGVV SPSSFVDVLK 

       430        440        450        460        470        480 
RENVLFNTTM HQDAHEFFNF LLNELSEYIE RENKKIAASD INSDSEPSKS KNFISDLFQG 

       490        500        510        520        530        540 
TLTNQIKCLT CDNITSRDEP FLDFPIEVQG DEETDIQEIL KSYHQREMLN GSNKFYCDEC 

       550        560        570        580        590        600 
CGLQEAERLV GLKQLPDTLT LHLKRFKYSE KQNCNIKLFN NIHYPLTLNV CSSINSKVCQ 

       610        620        630        640        650        660 
KYELAGIVVH MGGGPQHGHY VSLCKHEKFG WLLFDDETVE AVKEETVLEF TGESPNMATA 

       670        680        690        700        710        720 
YVLFYKAMYS NAVEKNDREN MAKEQDDNID NLIKYDDWLR TCNSGQKKKE ELPIADDLDT 

       730        740 
AIDDSFVSNT PIKSSKKKSR MFSFRKS 

« Hide

References

« Hide 'large scale' references
[1]"Complete DNA sequence of yeast chromosome II."
Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C. expand/collapse author list , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[2]Saccharomyces Genome Database
Submitted (MAR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 180.
Strain: ATCC 204508 / S288c.
[3]"Sequencing and comparison of yeast species to identify genes and regulatory elements."
Kellis M., Patterson N., Endrizzi M., Birren B.W., Lander E.S.
Nature 423:241-254(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION OF FRAMESHIFT.
[4]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[5]"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry."
Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F.
Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-198, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[6]"A multidimensional chromatography technology for in-depth phosphoproteome analysis."
Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[7]"Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Z35828 Genomic DNA. Translation: CAA84887.1. Frameshift.
BK006936 Genomic DNA. Translation: DAA07054.2.
PIRS45803.
RefSeqNP_009486.3. NM_001178307.2.

3D structure databases

ProteinModelPortalP38187.
SMRP38187. Positions 137-170, 431-665.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid32633. 102 interactions.
DIPDIP-795N.
IntActP38187. 2 interactions.
MINTMINT-2783268.
STRING4932.YBL067C.

Protein family/group databases

MEROPSC19.100.

Proteomic databases

PaxDbP38187.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYBL067C; YBL067C; YBL067C.
GeneID852212.
KEGGsce:YBL067C.

Organism-specific databases

CYGDYBL067c.
SGDS000000163. UBP13.

Phylogenomic databases

eggNOGCOG5077.
GeneTreeENSGT00650000093027.
HOGENOMHOG000141813.
KOK11872.
OMAHESTARP.
OrthoDBEOG7TF7JV.

Enzyme and pathway databases

BioCycYEAST:G3O-28963-MONOMER.

Gene expression databases

GenevestigatorP38187.

Family and domain databases

InterProIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR028889. UCH/PAN2.
[Graphical view]
PfamPF00443. UCH. 1 hit.
[Graphical view]
PROSITEPS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio970718.

Entry information

Entry nameUBP13_YEAST
AccessionPrimary (citable) accession number: P38187
Secondary accession number(s): D6VPT4
Entry history
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: July 27, 2011
Last modified: April 16, 2014
This is version 113 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome II

Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries