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Q9SB51

- UBP16_ARATH

UniProt

Q9SB51 - UBP16_ARATH

Protein

Ubiquitin carboxyl-terminal hydrolase 16

Gene

UBP16

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 94 (01 Oct 2014)
      Sequence version 1 (01 May 2000)
      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. Involved in salt tolerance by modulating sodium transport activity and repressing cell death at least partially through modulating SHM1 stability and activity.1 Publication

    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).1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei551 – 5511NucleophilePROSITE-ProRule annotation
    Active sitei807 – 8071Proton acceptorPROSITE-ProRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri74 – 11138MYND-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. cysteine-type peptidase activity Source: UniProtKB-KW
    2. metal ion binding Source: UniProtKB-KW
    3. protein binding Source: IntAct
    4. ubiquitin thiolesterase activity Source: UniProtKB

    GO - Biological processi

    1. cell proliferation Source: TAIR
    2. flower development Source: TAIR
    3. leaf development Source: TAIR
    4. protein deubiquitination Source: UniProtKB
    5. regulation of response to salt stress Source: UniProtKB
    6. response to salt stress Source: UniProtKB
    7. root development Source: TAIR
    8. shoot system development Source: TAIR
    9. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciARA:AT4G24560-MONOMER.

    Protein family/group databases

    MEROPSiC19.A07.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 16 (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme 16
    Short name:
    AtUBP16
    Ubiquitin thioesterase 16
    Ubiquitin-specific-processing protease 16
    Gene namesi
    Name:UBP16
    Ordered Locus Names:At4g24560
    ORF Names:F22K18.240
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 4

    Organism-specific databases

    TAIRiAT4G24560.

    Subcellular locationi

    GO - Cellular componenti

    1. integral component of membrane Source: UniProtKB-KW

    Keywords - Cellular componenti

    Membrane

    Pathology & Biotechi

    Disruption phenotypei

    Exhibits reduced salt tolerance. Reduced shoot growth in response to salt stress.1 Publication

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi551 – 5511C → S: Abolishes deubiquitination activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 10081008Ubiquitin carboxyl-terminal hydrolase 16PRO_0000313042Add
    BLAST

    Proteomic databases

    PaxDbiQ9SB51.
    PRIDEiQ9SB51.

    Expressioni

    Tissue specificityi

    Expressed in flowers, siliques, rosette leaves, cauline leaves, stems and at a lower level in roots.1 Publication

    Inductioni

    By salt stress.1 Publication

    Gene expression databases

    GenevestigatoriQ9SB51.

    Interactioni

    Subunit structurei

    Interacts with SHM1 and SHM4.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    SHM1Q9SZJ53EBI-6589403,EBI-2292536
    SHM4O232543EBI-6589403,EBI-6589432

    Protein-protein interaction databases

    BioGridi13847. 4 interactions.
    IntActiQ9SB51. 2 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9SB51.
    SMRiQ9SB51. Positions 543-844.
    ModBaseiSearch...
    MobiDBiSearch...

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei7 – 2721HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini542 – 847306USPAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi193 – 365173Ser-richAdd
    BLAST
    Compositional biasi878 – 991114Ser-richAdd
    BLAST

    Sequence similaritiesi

    Belongs to the peptidase C19 family.Curated
    Contains 1 MYND-type zinc finger.PROSITE-ProRule annotation
    Contains 1 USP domain.Curated

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri74 – 11138MYND-typePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Transmembrane, Transmembrane helix, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG5533.
    HOGENOMiHOG000242869.
    InParanoidiQ9SB51.
    KOiK11855.
    OMAiNKVELRP.
    PhylomeDBiQ9SB51.

    Family and domain databases

    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    IPR002893. Znf_MYND.
    [Graphical view]
    PfamiPF00443. UCH. 1 hit.
    PF01753. zf-MYND. 1 hit.
    [Graphical view]
    PROSITEiPS00972. USP_1. 1 hit.
    PS50235. USP_3. 1 hit.
    PS01360. ZF_MYND_1. 1 hit.
    PS50865. ZF_MYND_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9SB51-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLLVLDLGIS SLVLVVSLVL PLIGLFVRHK WRVAAQRREE IRRLLIHASE     50
    EAARAELEAS VEFSSVAVSN VFHCPVCYCL ATTRCSRCKA VRYCSGKCQI 100
    IHWRQGHKDE CHPASIVYDS EDESDSDLRL GEENGQNTPE ETLLVGPEPV 150
    TIPIGESLLS NRARSPEDGN GDIADNKDDL IDKEEAVSVA ETSGSSFSGF 200
    SSSPRNDSGD EISRCESFSS SESERSESLL DAHVSVEPED TCFSTIEDAP 250
    SKLLSPKFVH LVESVDNLAN LPKLSVHKPE DDAGQNQSQS RSLHSLVTDR 300
    HPVSADPSLK SSDFWGTALG SAERVSDSCV KSKSGRPGNS SLHFSFGSGS 350
    SRDTSAAKVS EQRSSILKEA PRGTGYISDG VNLRERNAKR FDEAEIALPI 400
    SSSTDALSPL DSSNLSHVTL PKSKSASSEN GSMLAPLKVG EVQLLASKAS 450
    NTKKCADLMK HSPLGAKSVR VLDHQKQNGA VVQHINSLHG RSGLKASVLK 500
    VVDQWTRPKS ENEMAGRHGH KGLFPYEVFA KLYTYKIEFQ PCGLINVGNS 550
    CFANVVFQCL MFTPPLTTYF LQQFHSRACT KKEQCFTCGF EKLVVKAKEE 600
    KSPLSPNGLL SQLQNIGIFL GNGKEEDAHE FLRFVVDTMQ SVCIKASEYD 650
    MTKSSKLEDT TLIGLTFGGY LRSKIKCMKC QVKSELREKM MDLTVEIDGD 700
    ISTLDDALRR FTRTEILDGE NKYRCGSCKS YERAKKKLKI TEPPNVLTIA 750
    LKRFQAGKFG KLNKLIRFPE TLDLAPYVSG GSEKSHDYKL YGVIVHLDVM 800
    NAAFSGHYVC YIRNQNKWYK ADDSTVVTSD VERILTKGAY MLFYARCTPT 850
    PPRLAVCTKT EASNKKSRVP LPKANEKSTI SRSVSTSSPE LSSNTPGGGR 900
    SGNIQSFYSS FQRLQKILEE DSASDSSSLF DSNSDECSCS TDSTSMDDFA 950
    DFIFGDHQGR AHGQSETPSP TSSSSSSSPP FTRRSPLSRS SPETYGTSRH 1000
    QLPLGGER 1008
    Length:1,008
    Mass (Da):110,600
    Last modified:May 1, 2000 - v1
    Checksum:iF2DF3BD6E9039B9E
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti183 – 1831K → N in AAG42757. (PubMed:11115897)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF302666 mRNA. Translation: AAG42757.1.
    AL035356 Genomic DNA. Translation: CAA23007.1.
    AL161561 Genomic DNA. Translation: CAB79366.1.
    CP002687 Genomic DNA. Translation: AEE84926.1.
    PIRiT05578.
    RefSeqiNP_567705.1. NM_118589.2.
    UniGeneiAt.2551.

    Genome annotation databases

    EnsemblPlantsiAT4G24560.1; AT4G24560.1; AT4G24560.
    GeneIDi828558.
    KEGGiath:AT4G24560.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF302666 mRNA. Translation: AAG42757.1 .
    AL035356 Genomic DNA. Translation: CAA23007.1 .
    AL161561 Genomic DNA. Translation: CAB79366.1 .
    CP002687 Genomic DNA. Translation: AEE84926.1 .
    PIRi T05578.
    RefSeqi NP_567705.1. NM_118589.2.
    UniGenei At.2551.

    3D structure databases

    ProteinModelPortali Q9SB51.
    SMRi Q9SB51. Positions 543-844.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 13847. 4 interactions.
    IntActi Q9SB51. 2 interactions.

    Protein family/group databases

    MEROPSi C19.A07.

    Proteomic databases

    PaxDbi Q9SB51.
    PRIDEi Q9SB51.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT4G24560.1 ; AT4G24560.1 ; AT4G24560 .
    GeneIDi 828558.
    KEGGi ath:AT4G24560.

    Organism-specific databases

    TAIRi AT4G24560.

    Phylogenomic databases

    eggNOGi COG5533.
    HOGENOMi HOG000242869.
    InParanoidi Q9SB51.
    KOi K11855.
    OMAi NKVELRP.
    PhylomeDBi Q9SB51.

    Enzyme and pathway databases

    BioCyci ARA:AT4G24560-MONOMER.

    Gene expression databases

    Genevestigatori Q9SB51.

    Family and domain databases

    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    IPR002893. Znf_MYND.
    [Graphical view ]
    Pfami PF00443. UCH. 1 hit.
    PF01753. zf-MYND. 1 hit.
    [Graphical view ]
    PROSITEi PS00972. USP_1. 1 hit.
    PS50235. USP_3. 1 hit.
    PS01360. ZF_MYND_1. 1 hit.
    PS50865. ZF_MYND_2. 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], GENE FAMILY ORGANIZATION, NOMENCLATURE.
      Strain: cv. Columbia.
    2. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
      Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
      , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
      Nature 402:769-777(1999) [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. "Ubiquitin-specific protease16 modulates salt tolerance in Arabidopsis by regulating Na(+)/H(+) antiport activity and serine hydroxymethyltransferase stability."
      Zhou H., Zhao J., Yang Y., Chen C., Liu Y., Jin X., Chen L., Li X., Deng X.W., Schumaker K.S., Guo Y.
      Plant Cell 24:5106-5122(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE, INDUCTION BY SALT, TISSUE SPECIFICITY, MUTAGENESIS OF CYS-551, CATALYTIC ACTIVITY, INTERACTION WITH SHM1 AND SHM4, SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiUBP16_ARATH
    AccessioniPrimary (citable) accession number: Q9SB51
    Secondary accession number(s): Q9FPS8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: May 1, 2000
    Last modified: October 1, 2014
    This is version 94 of the entry and version 1 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