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Q9FPT1

- UBP12_ARATH

UniProt

Q9FPT1 - UBP12_ARATH

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Protein

Ubiquitin carboxyl-terminal hydrolase 12

Gene

UBP12

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

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).By similarity

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei208 – 2081NucleophilePROSITE-ProRule annotation
Active sitei455 – 4551Proton acceptorPROSITE-ProRule annotation

GO - Molecular functioni

  1. cysteine-type peptidase activity Source: UniProtKB-KW
  2. ubiquitinyl hydrolase activity Source: InterPro

GO - Biological processi

  1. ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

BioCyciARA:AT5G06600-MONOMER.
ARA:GQT-714-MONOMER.
ARA:GQT-715-MONOMER.

Protein family/group databases

MEROPSiC19.A73.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 12 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 12
Short name:
AtUBP12
Ubiquitin thioesterase 12
Ubiquitin-specific-processing protease 12
Gene namesi
Name:UBP12
Ordered Locus Names:At5g06600
ORF Names:F15M7.13
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G06600.

Subcellular locationi

GO - Cellular componenti

  1. cytosol Source: TAIR
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11161116Ubiquitin carboxyl-terminal hydrolase 12PRO_0000313039Add
BLAST

Post-translational modificationi

Ubiquitinated.1 Publication

Keywords - PTMi

Ubl conjugation

Proteomic databases

PaxDbiQ9FPT1.
PRIDEiQ9FPT1.

Expressioni

Gene expression databases

ExpressionAtlasiQ9FPT1. baseline and differential.
GenevestigatoriQ9FPT1.

Interactioni

Protein-protein interaction databases

BioGridi15827. 4 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ9FPT1.
SMRiQ9FPT1. Positions 57-777.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini54 – 179126MATHPROSITE-ProRule annotationAdd
BLAST
Domaini199 – 524326USPAdd
BLAST

Sequence similaritiesi

Belongs to the peptidase C19 family.Curated
Contains 1 MATH domain.PROSITE-ProRule annotation
Contains 1 USP domain.Curated

Phylogenomic databases

eggNOGiCOG5077.
HOGENOMiHOG000160240.
InParanoidiQ9FPT1.
KOiK11838.
OMAiYKLQDAN.
PhylomeDBiQ9FPT1.

Family and domain databases

InterProiIPR002083. MATH.
IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR008974. TRAF-like.
IPR028889. UCH/PAN2.
IPR024729. USP7_ICP0-binding_dom.
IPR029346. USP_C.
[Graphical view]
PfamiPF00917. MATH. 1 hit.
PF00443. UCH. 1 hit.
PF14533. USP7_C2. 1 hit.
PF12436. USP7_ICP0_bdg. 1 hit.
[Graphical view]
SMARTiSM00061. MATH. 1 hit.
[Graphical view]
SUPFAMiSSF49599. SSF49599. 1 hit.
PROSITEiPS50144. MATH. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q9FPT1-1) [UniParc]FASTAAdd to Basket

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.

« Hide

        10         20         30         40         50
MTMMTPPPVD QPEDEEMLVP NSDLVDGPAQ PMEVTQPETA ASTVENQPAE
60 70 80 90 100
DPPTLKFTWT IPNFSRQNTR KHYSDVFVVG GYKWRILIFP KGNNVDHLSM
110 120 130 140 150
YLDVSDAASL PYGWSRYAQF SLAVVNQIHT RYTVRKETQH QFNARESDWG
160 170 180 190 200
FTSFMPLSEL YDPSRGYLVN DTVLVEAEVA VRKVLDYWSY DSKKETGFVG
210 220 230 240 250
LKNQGATCYM NSLLQTLYHI PYFRKAVYHM PTTENDAPTA SIPLALQSLF
260 270 280 290 300
YKLQYNDTSV ATKELTKSFG WDTYDSFMQH DVQELNRVLC EKLEDKMKGT
310 320 330 340 350
VVEGTIQQLF EGHHMNYIEC INVDFKSTRK ESFYDLQLDV KGCKDVYASF
360 370 380 390 400
DKYVEVERLE GDNKYHAEGH GLQDAKKGVL FIDFPPVLQL QLKRFEYDFM
410 420 430 440 450
RDTMVKINDR YEFPLELDLD REDGKYLSPD ADRSVRNLYT LHSVLVHSGG
460 470 480 490 500
VHGGHYYAFI RPTLSDQWYK FDDERVTKED LKRALEEQYG GEEELPQTNP
510 520 530 540 550
GFNNNPPFKF TKYSNAYMLV YIRESDKDKI ICNVDEKDIA EHLRVRLKKE
560 570 580 590 600
QEEKEDKRRY KAQAHLYTII KVARDEDLKE QIGKDIYFDL VDHDKVRSFR
610 620 630 640 650
IQKQTPFQQF KEEVAKEFGV PVQLQRFWIW AKRQNHTYRP NRPLTPQEEL
660 670 680 690 700
QPVGQIREAS NKANTAELKL FLEVEHLDLR PIPPPEKSKE DILLFFKLYD
710 720 730 740 750
PEKAVLSYAG RLMVKSSSKP MDITGKLNEM VGFAPDEEIE LFEEIKFEPC
760 770 780 790 800
VMCEHLDKKT SFRLCQIEDG DIICFQKPLV NKEIECLYPA VPSFLEYVQN
810 820 830 840 850
RQLVRFRALE KPKEDEFVLE LSKQHTYDDV VEKVAEKLGL DDPSKLRLTS
860 870 880 890 900
HNCYSQQPKP QPIKYRGVDH LSDMLVHYNQ TSDILYYEVL DIPLPELQGL
910 920 930 940 950
KTLKVAFHHA TKEEVVIHNI RLPKQSTVGD VINELKTKVE LSHPDAELRL
960 970 980 990 1000
LEVFYHKIYK IFPSTERIEN INDQYWTLRA EEIPEEEKNI GPNDRLILVY
1010 1020 1030 1040 1050
HFAKETGQNQ QVQNFGEPFF LVIHEGETLE EIKNRIQKKL HVSDEDFAKW
1060 1070 1080 1090 1100
KFAFMSMGRP EYLQDTDVVY NRFQRRDVYG AFEQYLGLEH ADTTPKRAYA
1110
ANQNRHAYEK PVKIYN
Length:1,116
Mass (Da):130,607
Last modified:January 15, 2008 - v2
Checksum:iE1FD0B84E6D5EC68
GO
Isoform 2 (identifier: Q9FPT1-2) [UniParc]FASTAAdd to Basket

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.

Show »
Length:1,115
Mass (Da):130,479
Checksum:i4AB4E10D836C2172
GO

Sequence cautioni

The sequence BAB11409.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti840 – 8401L → F in AAG42754. (PubMed:11115897)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei11 – 111Missing in isoform 2. 1 PublicationVSP_029989

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF302663 mRNA. Translation: AAG42754.1.
AP002543 Genomic DNA. Translation: BAB11409.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED91039.1.
CP002688 Genomic DNA. Translation: AED91040.1.
AF360198 mRNA. Translation: AAK25908.1.
AY142616 mRNA. Translation: AAN13185.1.
RefSeqiNP_568171.1. NM_120743.2. [Q9FPT1-1]
NP_850783.1. NM_180452.1. [Q9FPT1-2]
UniGeneiAt.22362.
At.67352.

Genome annotation databases

EnsemblPlantsiAT5G06600.1; AT5G06600.1; AT5G06600. [Q9FPT1-1]
GeneIDi830548.
KEGGiath:AT5G06600.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF302663 mRNA. Translation: AAG42754.1 .
AP002543 Genomic DNA. Translation: BAB11409.1 . Sequence problems.
CP002688 Genomic DNA. Translation: AED91039.1 .
CP002688 Genomic DNA. Translation: AED91040.1 .
AF360198 mRNA. Translation: AAK25908.1 .
AY142616 mRNA. Translation: AAN13185.1 .
RefSeqi NP_568171.1. NM_120743.2. [Q9FPT1-1 ]
NP_850783.1. NM_180452.1. [Q9FPT1-2 ]
UniGenei At.22362.
At.67352.

3D structure databases

ProteinModelPortali Q9FPT1.
SMRi Q9FPT1. Positions 57-777.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 15827. 4 interactions.

Protein family/group databases

MEROPSi C19.A73.

Proteomic databases

PaxDbi Q9FPT1.
PRIDEi Q9FPT1.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT5G06600.1 ; AT5G06600.1 ; AT5G06600 . [Q9FPT1-1 ]
GeneIDi 830548.
KEGGi ath:AT5G06600.

Organism-specific databases

TAIRi AT5G06600.

Phylogenomic databases

eggNOGi COG5077.
HOGENOMi HOG000160240.
InParanoidi Q9FPT1.
KOi K11838.
OMAi YKLQDAN.
PhylomeDBi Q9FPT1.

Enzyme and pathway databases

BioCyci ARA:AT5G06600-MONOMER.
ARA:GQT-714-MONOMER.
ARA:GQT-715-MONOMER.

Gene expression databases

ExpressionAtlasi Q9FPT1. baseline and differential.
Genevestigatori Q9FPT1.

Family and domain databases

InterProi IPR002083. MATH.
IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR008974. TRAF-like.
IPR028889. UCH/PAN2.
IPR024729. USP7_ICP0-binding_dom.
IPR029346. USP_C.
[Graphical view ]
Pfami PF00917. MATH. 1 hit.
PF00443. UCH. 1 hit.
PF14533. USP7_C2. 1 hit.
PF12436. USP7_ICP0_bdg. 1 hit.
[Graphical view ]
SMARTi SM00061. MATH. 1 hit.
[Graphical view ]
SUPFAMi SSF49599. SSF49599. 1 hit.
PROSITEi PS50144. MATH. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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] [Europe PMC] [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. 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.
    , 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] (ISOFORM 2).
    Strain: cv. Columbia.
  5. "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].

Entry informationi

Entry nameiUBP12_ARATH
AccessioniPrimary (citable) accession number: Q9FPT1
Secondary accession number(s): Q9C5K1, Q9FG10
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 15, 2008
Last modified: October 29, 2014
This is version 88 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3