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Q9FPT1

- UBP12_ARATH

UniProt

Q9FPT1 - UBP12_ARATH

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
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    • History
      Entry version 87 (01 Oct 2014)
      Sequence version 2 (15 Jan 2008)
      Previous versions | rss
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    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

    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

    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

    GenevestigatoriQ9FPT1.

    Interactioni

    Protein-protein interaction databases

    BioGridi15827. 4 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9FPT1.
    SMRiQ9FPT1. Positions 57-640.
    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

    MTMMTPPPVD QPEDEEMLVP NSDLVDGPAQ PMEVTQPETA ASTVENQPAE     50
    DPPTLKFTWT IPNFSRQNTR KHYSDVFVVG GYKWRILIFP KGNNVDHLSM 100
    YLDVSDAASL PYGWSRYAQF SLAVVNQIHT RYTVRKETQH QFNARESDWG 150
    FTSFMPLSEL YDPSRGYLVN DTVLVEAEVA VRKVLDYWSY DSKKETGFVG 200
    LKNQGATCYM NSLLQTLYHI PYFRKAVYHM PTTENDAPTA SIPLALQSLF 250
    YKLQYNDTSV ATKELTKSFG WDTYDSFMQH DVQELNRVLC EKLEDKMKGT 300
    VVEGTIQQLF EGHHMNYIEC INVDFKSTRK ESFYDLQLDV KGCKDVYASF 350
    DKYVEVERLE GDNKYHAEGH GLQDAKKGVL FIDFPPVLQL QLKRFEYDFM 400
    RDTMVKINDR YEFPLELDLD REDGKYLSPD ADRSVRNLYT LHSVLVHSGG 450
    VHGGHYYAFI RPTLSDQWYK FDDERVTKED LKRALEEQYG GEEELPQTNP 500
    GFNNNPPFKF TKYSNAYMLV YIRESDKDKI ICNVDEKDIA EHLRVRLKKE 550
    QEEKEDKRRY KAQAHLYTII KVARDEDLKE QIGKDIYFDL VDHDKVRSFR 600
    IQKQTPFQQF KEEVAKEFGV PVQLQRFWIW AKRQNHTYRP NRPLTPQEEL 650
    QPVGQIREAS NKANTAELKL FLEVEHLDLR PIPPPEKSKE DILLFFKLYD 700
    PEKAVLSYAG RLMVKSSSKP MDITGKLNEM VGFAPDEEIE LFEEIKFEPC 750
    VMCEHLDKKT SFRLCQIEDG DIICFQKPLV NKEIECLYPA VPSFLEYVQN 800
    RQLVRFRALE KPKEDEFVLE LSKQHTYDDV VEKVAEKLGL DDPSKLRLTS 850
    HNCYSQQPKP QPIKYRGVDH LSDMLVHYNQ TSDILYYEVL DIPLPELQGL 900
    KTLKVAFHHA TKEEVVIHNI RLPKQSTVGD VINELKTKVE LSHPDAELRL 950
    LEVFYHKIYK IFPSTERIEN INDQYWTLRA EEIPEEEKNI GPNDRLILVY 1000
    HFAKETGQNQ QVQNFGEPFF LVIHEGETLE EIKNRIQKKL HVSDEDFAKW 1050
    KFAFMSMGRP EYLQDTDVVY NRFQRRDVYG AFEQYLGLEH ADTTPKRAYA 1100
    ANQNRHAYEK PVKIYN 1116
    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.

    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:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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 57-640.
    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

    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

    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 1, 2014
    This is version 87 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