Reviewed, UniProtKB/Swiss-Prot Q9FPT1 (UBP12_ARATH)

Names and origin

Protein names

Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 12
    EC=3.1.2.15
Alternative name(s):
    Ubiquitin thioesterase 12
    Ubiquitin-specific-processing protease 12
    Deubiquitinating enzyme 12
      Short name=AtUBP12

Gene names

Name:	UBP12
Ordered Locus Names:	At5g06600
ORF Names:	F15M7.13

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	1116 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript 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 BAB11409.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Coding sequence diversity	Alternative splicing
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...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9FPT1-1)

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.

Isoform 2 (identifier: Q9FPT1-2)

The sequence of this isoform differs from the canonical sequence as follows:
     11-11: Missing.

Note: May be due to a competing acceptor splice site. No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1116	1116	Ubiquitin carboxyl-terminal hydrolase 12		PRO_0000313039
Regions
	Domain	54 – 179	126	MATH
Sites
	Active site	208	1	By similarity
	Active site	447	1	By similarity
	Active site	455	1	By similarity
Natural variations
	Alternative sequence	11	1	Missing in isoform 2.		VSP_029989
Experimental info
	Sequence conflict	840	1	L → F in AAG42754. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified January 15, 2008. Version 2. Checksum: E1FD0B84E6D5EC68	FASTA	1,116	130,607
	10 20 30 40 50 60 MTMMTPPPVD QPEDEEMLVP NSDLVDGPAQ PMEVTQPETA ASTVENQPAE DPPTLKFTWT 70 80 90 100 110 120 IPNFSRQNTR KHYSDVFVVG GYKWRILIFP KGNNVDHLSM YLDVSDAASL PYGWSRYAQF 130 140 150 160 170 180 SLAVVNQIHT RYTVRKETQH QFNARESDWG FTSFMPLSEL YDPSRGYLVN DTVLVEAEVA 190 200 210 220 230 240 VRKVLDYWSY DSKKETGFVG LKNQGATCYM NSLLQTLYHI PYFRKAVYHM PTTENDAPTA 250 260 270 280 290 300 SIPLALQSLF YKLQYNDTSV ATKELTKSFG WDTYDSFMQH DVQELNRVLC EKLEDKMKGT 310 320 330 340 350 360 VVEGTIQQLF EGHHMNYIEC INVDFKSTRK ESFYDLQLDV KGCKDVYASF DKYVEVERLE 370 380 390 400 410 420 GDNKYHAEGH GLQDAKKGVL FIDFPPVLQL QLKRFEYDFM RDTMVKINDR YEFPLELDLD 430 440 450 460 470 480 REDGKYLSPD ADRSVRNLYT LHSVLVHSGG VHGGHYYAFI RPTLSDQWYK FDDERVTKED 490 500 510 520 530 540 LKRALEEQYG GEEELPQTNP GFNNNPPFKF TKYSNAYMLV YIRESDKDKI ICNVDEKDIA 550 560 570 580 590 600 EHLRVRLKKE QEEKEDKRRY KAQAHLYTII KVARDEDLKE QIGKDIYFDL VDHDKVRSFR 610 620 630 640 650 660 IQKQTPFQQF KEEVAKEFGV PVQLQRFWIW AKRQNHTYRP NRPLTPQEEL QPVGQIREAS 670 680 690 700 710 720 NKANTAELKL FLEVEHLDLR PIPPPEKSKE DILLFFKLYD PEKAVLSYAG RLMVKSSSKP 730 740 750 760 770 780 MDITGKLNEM VGFAPDEEIE LFEEIKFEPC VMCEHLDKKT SFRLCQIEDG DIICFQKPLV 790 800 810 820 830 840 NKEIECLYPA VPSFLEYVQN RQLVRFRALE KPKEDEFVLE LSKQHTYDDV VEKVAEKLGL 850 860 870 880 890 900 DDPSKLRLTS HNCYSQQPKP QPIKYRGVDH LSDMLVHYNQ TSDILYYEVL DIPLPELQGL 910 920 930 940 950 960 KTLKVAFHHA TKEEVVIHNI RLPKQSTVGD VINELKTKVE LSHPDAELRL LEVFYHKIYK 970 980 990 1000 1010 1020 IFPSTERIEN INDQYWTLRA EEIPEEEKNI GPNDRLILVY HFAKETGQNQ QVQNFGEPFF 1030 1040 1050 1060 1070 1080 LVIHEGETLE EIKNRIQKKL HVSDEDFAKW KFAFMSMGRP EYLQDTDVVY NRFQRRDVYG 1090 1100 1110 AFEQYLGLEH ADTTPKRAYA ANQNRHAYEK PVKIYN
	Isoform 2. Checksum: 4AB4E10D836C2172	FASTA	1,115	130,479
	10 20 30 40 50 60 MTMMTPPPVD PEDEEMLVPN SDLVDGPAQP MEVTQPETAA STVENQPAED PPTLKFTWTI 70 80 90 100 110 120 PNFSRQNTRK HYSDVFVVGG YKWRILIFPK GNNVDHLSMY LDVSDAASLP YGWSRYAQFS 130 140 150 160 170 180 LAVVNQIHTR YTVRKETQHQ FNARESDWGF TSFMPLSELY DPSRGYLVND TVLVEAEVAV 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 VEGTIQQLFE GHHMNYIECI NVDFKSTRKE SFYDLQLDVK GCKDVYASFD KYVEVERLEG 370 380 390 400 410 420 DNKYHAEGHG LQDAKKGVLF IDFPPVLQLQ LKRFEYDFMR DTMVKINDRY EFPLELDLDR 430 440 450 460 470 480 EDGKYLSPDA DRSVRNLYTL HSVLVHSGGV HGGHYYAFIR PTLSDQWYKF DDERVTKEDL 490 500 510 520 530 540 KRALEEQYGG EEELPQTNPG FNNNPPFKFT KYSNAYMLVY IRESDKDKII CNVDEKDIAE 550 560 570 580 590 600 HLRVRLKKEQ EEKEDKRRYK AQAHLYTIIK VARDEDLKEQ IGKDIYFDLV DHDKVRSFRI 610 620 630 640 650 660 QKQTPFQQFK EEVAKEFGVP VQLQRFWIWA KRQNHTYRPN RPLTPQEELQ PVGQIREASN 670 680 690 700 710 720 KANTAELKLF LEVEHLDLRP IPPPEKSKED ILLFFKLYDP EKAVLSYAGR LMVKSSSKPM 730 740 750 760 770 780 DITGKLNEMV GFAPDEEIEL FEEIKFEPCV MCEHLDKKTS FRLCQIEDGD IICFQKPLVN 790 800 810 820 830 840 KEIECLYPAV PSFLEYVQNR QLVRFRALEK PKEDEFVLEL SKQHTYDDVV EKVAEKLGLD 850 860 870 880 890 900 DPSKLRLTSH NCYSQQPKPQ PIKYRGVDHL SDMLVHYNQT SDILYYEVLD IPLPELQGLK 910 920 930 940 950 960 TLKVAFHHAT KEEVVIHNIR LPKQSTVGDV INELKTKVEL SHPDAELRLL EVFYHKIYKI 970 980 990 1000 1010 1020 FPSTERIENI NDQYWTLRAE EIPEEEKNIG PNDRLILVYH FAKETGQNQQ VQNFGEPFFL 1030 1040 1050 1060 1070 1080 VIHEGETLEE IKNRIQKKLH VSDEDFAKWK FAFMSMGRPE YLQDTDVVYN RFQRRDVYGA 1090 1100 1110 FEQYLGLEHA DTTPKRAYAA NQNRHAYEKP VKIYN

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"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: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), GENE FAMILY ORGANIZATION, NOMENCLATURE. Strain: cv. Columbia.
[2]	"Structural analysis of Arabidopsis thaliana chromosome 5. XI." Kaneko T., Katoh T., Asamizu E., Sato S., Nakamura Y., Kotani H., Tabata S. Submitted (JUN-2000) to the EMBL/GenBank/DDBJ databases 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] (ISOFORM 2). Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AF302663 mRNA. Translation: AAG42754.1. AP002543 Genomic DNA. Translation: BAB11409.1. Sequence problems. AF360198 mRNA. Translation: AAK25908.1. AY142616 mRNA. Translation: AAN13185.1.
IPI	IPI00540940. IPI00547717.
RefSeq	NP_568171.1. NP_850783.1.
UniGene	At.22362 At.67352
3D structure databases
HSSP	HSSP built from PDB template 1NBF based on UniProtKB Q93009.
ModBase	Search...
Protein-protein interaction databases
STRING	Q9FPT1.
Proteomic databases
PRIDE	Q9FPT1.
Genome annotation databases
GeneID	830548.
GenomeReviews	Gene locus AT5G06600 in contig BA000015_GR.
Organism-specific databases
TAIR	At5g06600.
Phylogenomic databases
OMA	PQPMEVV.
Enzyme and pathway databases
BRENDA	3.1.2.15. 302.
Gene expression databases
Genevestigator	Q9FPT1.
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

UBP12_ARATH

Accession

Primary (citable) accession number: Q9FPT1
Secondary accession number(s): Q9C5K1, Q9FG10

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	January 15, 2008
Last modified:	November 3, 2009
This is version 47 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)