Reviewed, UniProtKB/Swiss-Prot Q84WU2 (UBP13_ARATH)

Names and origin

Protein names

Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 13
    EC=3.1.2.15
Alternative name(s):
    Ubiquitin thioesterase 13
    Ubiquitin-specific-processing protease 13
    Deubiquitinating enzyme 13
      Short name=AtUBP13

Gene names

Name:	UBP13
Ordered Locus Names:	At3g11910
ORF Names:	F26K24.20, MEC18.1

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	1115 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence 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 ubiquinated proteins By similarity.
Catalytic activity	Ubiquitin C-terminal thioester + H2O = ubiquitin + a thiol.
Sequence similarities	Belongs to the peptidase C19 family. Contains 1 MATH 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.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Molecular function	Hydrolase Protease Thiol protease
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	ubiquitin-dependent protein catabolic process Inferred from electronic annotation. Source: InterPro
Molecular function	cysteine-type peptidase activity Inferred from electronic annotation. Source: UniProtKB-KW ubiquitin thiolesterase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1115	1115	Ubiquitin carboxyl-terminal hydrolase 13		PRO_0000313040
Regions
	Domain	53 – 178	126	MATH
Sites
	Active site	207	1	By similarity
	Active site	446	1	By similarity
	Active site	454	1	By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q84WU2-1 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: 29D3A53A60CCDFF1	FASTA	1,115	130,649
	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

References

	« Hide 'large scale' referencesShow '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. , 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: 11130713] [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: 10907853] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	"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. , 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: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[4]	"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. , 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.
[5]	"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: 11115897] [Abstract] Cited for: GENE FAMILY ORGANIZATION, NOMENCLATURE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AC016795 Genomic DNA. Translation: AAF23207.1. Sequence problems. AP002040 Genomic DNA. Translation: BAB17021.1. Sequence problems. BT002760 mRNA. Translation: AAO22588.1. AK226819 mRNA. Translation: BAE98915.1.
IPI	IPI00517979.
RefSeq	NP_187797.3.
UniGene	At.25337
3D structure databases
HSSP	HSSP built from PDB template 1NBF based on UniProtKB Q93009.
ModBase	Search...
Protein family/group databases
MEROPS	C19.016.
Proteomic databases
PRIDE	Q84WU2.
ProMEX	Q84WU2.
Genome annotation databases
GeneID	820364.
GenomeReviews	Gene locus AT3G11910 in contig BA000014_GR.
KEGG	ath:AT3G11910.
NMPDR	fig|3702.1.peg.13253.
Organism-specific databases
TAIR	At3g11910.
Phylogenomic databases
OMA	NTIDNND.
Enzyme and pathway databases
BRENDA	3.1.2.15. 302.
Gene expression databases
ArrayExpress	Q84WU2.
Genevestigator	Q84WU2.
Family and domain databases
InterPro	IPR002083. MATH. IPR018200. Pept_C19ubi-hydrolase_C_CS. IPR001394. Peptidase_C19. IPR013322. TRAF-type. [Graphical view]
Gene3D	G3DSA:2.60.210.10. TRAF-type. 1 hit.
Pfam	PF00917. MATH. 1 hit. PF00443. UCH. 1 hit. [Graphical view]
SMART	SM00061. MATH. 1 hit. [Graphical view]
PROSITE	PS50144. MATH. 1 hit. PS00972. UCH_2_1. 1 hit. PS00973. UCH_2_2. 1 hit. PS50235. UCH_2_3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

UBP13_ARATH

Accession

Primary (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:	November 3, 2009
This is version 40 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)