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Q84WU2 (UBP13_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 75. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·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
Short name=AtUBP13
Ubiquitin thioesterase 13
Ubiquitin-specific-processing protease 13
Gene names
Name:UBP13
Ordered Locus Names:At3g11910
ORF Names:F26K24.20, MEC18.1
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length1115 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin. Involved in the processing of poly-ubiquitin precursors as well as that of ubiquitinated proteins By similarity.

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).

Post-translational modification

Ubiquitinated.

Sequence similarities

Belongs to the peptidase C19 family.

Contains 1 MATH domain.

Contains 1 USP domain.

Sequence caution

The sequence AAF23207.1 differs from that shown. Reason: Erroneous gene model prediction.

The sequence BAB17021.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q84WU2-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 11151115Ubiquitin carboxyl-terminal hydrolase 13
PRO_0000313040

Regions

Domain53 – 178126MATH
Domain198 – 522325USP

Sites

Active site2071Nucleophile By similarity
Active site4541Proton acceptor By similarity

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified June 1, 2003. Version 1.
Checksum: 29D3A53A60CCDFF1

FASTA1,115130,649
        10         20         30         40         50         60 
MTMMTPPPLD QQEDEEMLVP NPDLVEGPQP MEVAQTDPAA TAVENPPPED PPSLKFTWTI 

        70         80         90        100        110        120 
PMFTRLNTRK HYSDVFVVGG YKWRILIFPK GNNVDHLSMY LDVADAANLP YGWSRYSQFS 

       130        140        150        160        170        180 
LAVVNQVNNR YSIRKETQHQ FNARESDWGF TSFMPLSELY EPTRGYLVND TVLIEAEVAV 

       190        200        210        220        230        240 
RKVLDYWSYD SKKETGFVGL KNQGATCYMN SLLQTLYHIP YFRKAVYHMP TTENDAPTAS 

       250        260        270        280        290        300 
IPLALQSLFY KLQYNDTSVA TKELTKSFGW DTYDSFMQHD VQELNRVLCE KLEDKMKGTV 

       310        320        330        340        350        360 
VEGTIQKLFE GHHMNYIECI NVDYKSTRKE SFYDLQLDVK GCKDVYASFD KYVEVERLEG 

       370        380        390        400        410        420 
DNKYHAEGHD LQDAKKGVLF IDFPPVLQLQ LKRFEYDFMR DTMVKINDRY EFPLQLDLDR 

       430        440        450        460        470        480 
EDGRYLSPDA DKSVRNLYTL HSVLVHSGGV HGGHYYAFIR PTLSDQWYKF DDERVTKEDV 

       490        500        510        520        530        540 
KRALEEQYGG EEELPQNNPG FNNPPFKFTK YSNAYMLVYI RESDKDKIIC NVDEKDIAEH 

       550        560        570        580        590        600 
LRVRLKKEQE EKEDKRKYKA QAHLFTTIKV ARDDDITEQI GKNIYFDLVD HEKVRSFRIQ 

       610        620        630        640        650        660 
KQTPFQQFKE EVAKEFGVPV QLQRFWIWAK RQNHTYRPNR PLSPNEELQT VGQIREASNK 

       670        680        690        700        710        720 
ANNAELKLFL EIERGPDDLP IPPPEKTSED ILLFFKLYDP ENAVLRYVGR LMVKSSSKPM 

       730        740        750        760        770        780 
DIVGQLNKMA GFAPDEEIEL FEEIKFEPCV MCEQIDKKTS FRLCQIEDGD IICYQKPLSI 

       790        800        810        820        830        840 
EESEFRYPDV PSFLEYVQNR ELVRFRTLEK PKEDEFTMEL SKLHTYDDVV ERVAEKLGLD 

       850        860        870        880        890        900 
DPSKLRLTSH NCYSQQPKPQ PIKYRGVDHL SDMLVHYNQT SDILYYEVLD IPLPELQGLK 

       910        920        930        940        950        960 
TLKVAFHSAT KDEVIIHNIR LPKQSTVGDV INELKTKVEL SHQDAELRLL EVFFHKIYKI 

       970        980        990       1000       1010       1020 
FPSTERIENI NDQYWTLRAE EIPEEEKNIG PNDRLIHVYH FTKEAGQNQQ VQNFGEPFFL 

      1030       1040       1050       1060       1070       1080 
VIHEGETLEE IKTRIQKKLH VPDEDFAKWK FASFSMGRPD YLLDTDVVYN RFQRRDVYGA 

      1090       1100       1110 
WEQYLGLEHI DNAPKRAYAA NQNRHAYEKP VKIYN 

« Hide

References

« Hide 'large scale' references
[1]"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. expand/collapse author list , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[2]"Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones."
Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.
DNA Res. 7:217-221(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[3]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[4]"Empirical analysis of transcriptional activity in the Arabidopsis genome."
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. expand/collapse author list , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[5]"Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. expand/collapse author list , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-545.
Strain: cv. Columbia.
[6]"The ubiquitin-specific protease family from Arabidopsis. AtUBP1 and 2 are required for the resistance to the amino acid analog canavanine."
Yan N., Doelling J.H., Falbel T.G., Durski A.M., Vierstra R.D.
Plant Physiol. 124:1828-1843(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE FAMILY ORGANIZATION, NOMENCLATURE.
[7]"Tandem affinity purification and mass spectrometric analysis of ubiquitylated proteins in Arabidopsis."
Saracco S.A., Hansson M., Scalf M., Walker J.M., Smith L.M., Vierstra R.D.
Plant J. 59:344-358(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AC016795 Genomic DNA. Translation: AAF23207.1. Sequence problems.
AP002040 Genomic DNA. Translation: BAB17021.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE75116.1.
BT002760 mRNA. Translation: AAO22588.1.
AK226819 mRNA. Translation: BAE98915.1.
RefSeqNP_187797.3. NM_112024.5.
UniGeneAt.25337.

3D structure databases

ProteinModelPortalQ84WU2.
SMRQ84WU2. Positions 56-672.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid5698. 3 interactions.

Protein family/group databases

MEROPSC19.A53.

Proteomic databases

PaxDbQ84WU2.
PRIDEQ84WU2.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT3G11910.1; AT3G11910.1; AT3G11910.
GeneID820364.
KEGGath:AT3G11910.

Organism-specific databases

TAIRAT3G11910.

Phylogenomic databases

eggNOGCOG5077.
HOGENOMHOG000160240.
InParanoidQ84WU2.
KOK11838.
OMAFTRARIK.
PhylomeDBQ84WU2.
ProtClustDBCLSN2689510.

Enzyme and pathway databases

BioCycARA:AT3G11910-MONOMER.
ARA:GQT-2250-MONOMER.

Gene expression databases

ArrayExpressQ84WU2.
GenevestigatorQ84WU2.

Family and domain databases

InterProIPR002083. MATH.
IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR008974. TRAF-like.
IPR028889. UCH/PAN2.
IPR024729. USP7_ICP0-binding_dom.
[Graphical view]
PfamPF00917. MATH. 1 hit.
PF00443. UCH. 1 hit.
PF12436. USP7_ICP0_bdg. 1 hit.
[Graphical view]
SMARTSM00061. MATH. 1 hit.
[Graphical view]
SUPFAMSSF49599. SSF49599. 1 hit.
PROSITEPS50144. MATH. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameUBP13_ARATH
AccessionPrimary (citable) accession number: Q84WU2
Secondary accession number(s): Q0WVD3, Q9FU99, Q9SF08
Entry history
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: June 1, 2003
Last modified: March 19, 2014
This is version 75 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names