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Q949Y0

- UBP6_ARATH

UniProt

Q949Y0 - UBP6_ARATH

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Protein

Ubiquitin carboxyl-terminal hydrolase 6

Gene
UBP6, At1g51710, F19C24.8
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 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.

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 sitei113 – 1131Nucleophile
Active sitei430 – 4301Proton acceptor By similarity

GO - Molecular functioni

  1. calmodulin binding Source: TAIR
  2. ubiquitin-specific protease activity Source: TAIR

GO - Biological processi

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

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Ubl conjugation pathway

Keywords - Ligandi

Calmodulin-binding

Enzyme and pathway databases

BioCyciARA:AT1G51710-MONOMER.
ARA:GQT-1079-MONOMER.

Protein family/group databases

MEROPSiC19.094.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 6 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 6
Short name:
AtUBP6
Ubiquitin thioesterase 6
Ubiquitin-specific-processing protease 6
Gene namesi
Name:UBP6
Ordered Locus Names:At1g51710
ORF Names:F19C24.8
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 1

Organism-specific databases

TAIRiAT1G51710.

Subcellular locationi

GO - Cellular componenti

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi113 – 1131C → S: Loss of activity. 1 Publication
Mutagenesisi175 – 1751W → R: Abolishes the calmodulin-binding. 1 Publication
Mutagenesisi178 – 1781L → K: Abolishes the calmodulin-binding. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 482482Ubiquitin carboxyl-terminal hydrolase 6PRO_0000313033Add
BLAST

Proteomic databases

PaxDbiQ949Y0.
PRIDEiQ949Y0.

Expressioni

Gene expression databases

ArrayExpressiQ949Y0.
GenevestigatoriQ949Y0.

Interactioni

Subunit structurei

Interacts with calmodulin (CaM).1 Publication

Protein-protein interaction databases

BioGridi26821. 4 interactions.
MINTiMINT-1351065.

Structurei

3D structure databases

ProteinModelPortaliQ949Y0.
SMRiQ949Y0. Positions 4-478.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 7776Ubiquitin-likeAdd
BLAST
Domaini104 – 478375USPAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni172 – 19120Calmodulin-bindingAdd
BLAST

Sequence similaritiesi

Belongs to the peptidase C19 family.
Contains 1 USP domain.

Phylogenomic databases

eggNOGiNOG286607.
HOGENOMiHOG000202292.
InParanoidiQ949Y0.
KOiK11843.
OMAiDWGNLKI.
PhylomeDBiQ949Y0.

Family and domain databases

InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR000626. Ubiquitin-like.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR028889. UCH/PAN2.
[Graphical view]
PfamiPF00240. ubiquitin. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view]
SMARTiSM00213. UBQ. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.
PROSITEiPS00299. UBIQUITIN_1. 1 hit.
PS50053. UBIQUITIN_2. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. Align

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q949Y0-1) [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

MPTVSVKWQK KVLDGIEIDV SLPPYVFKAQ LYDLTGVPPE RQKIMVKGGL    50
LKDDGDWAAI GVKDGQKLMM MGTADEIVKA PEKAIVFAED LPEEALATNL 100
GYSAGLVNLG NTCYMNSTVQ CLKSVPELKS ALSNYSLAAR SNDVDQTSHM 150
LTVATRELFG ELDRSVNAVS PSQFWMVLRK KYPQFSQLQN GMHMQQDAEE 200
CWTQLLYTLS QSLKAPTSSE GADAVKALFG VNLQSRLHCQ ESGEESSETE 250
SVYSLKCHIS HEVNHLHEGL KHGLKGELEK TSPALGRTAL YVKESLIDSL 300
PRYLTVQFVR FFWKRESNQK AKILRKVDYP LVLDIFDLCS EDLRKKLEAP 350
RQKLREEEGK KLGLQTSAKS GSKDSDVKMT DAEASANGSG ESSTVNPQEG 400
TSSEKETHMT GIYDLVAVLT HKGRSADSGH YVAWVKQESG KWIQYDDDNP 450
SMQREEDITK LSGGGDWHMA YITMYKARFV SM 482
Length:482
Mass (Da):53,696
Last modified:December 1, 2001 - v1
Checksum:iECF357E9C5BEF3F7
GO

Sequence cautioni

The sequence AAG50872.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti207 – 2071Y → F in AAG42751. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF302660 mRNA. Translation: AAG42751.1.
AC025294 Genomic DNA. Translation: AAG50872.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE32705.1.
AY050817 mRNA. Translation: AAK92752.1.
AY114081 mRNA. Translation: AAM45129.1.
BT000658 mRNA. Translation: AAN31805.1.
AY084730 mRNA. Translation: AAM61304.1.
AK221019 mRNA. Translation: BAD94710.1.
PIRiA96556.
RefSeqiNP_564596.1. NM_104049.3. [Q949Y0-1]
UniGeneiAt.16941.

Genome annotation databases

EnsemblPlantsiAT1G51710.1; AT1G51710.1; AT1G51710. [Q949Y0-1]
GeneIDi841596.
KEGGiath:AT1G51710.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF302660 mRNA. Translation: AAG42751.1 .
AC025294 Genomic DNA. Translation: AAG50872.1 . Sequence problems.
CP002684 Genomic DNA. Translation: AEE32705.1 .
AY050817 mRNA. Translation: AAK92752.1 .
AY114081 mRNA. Translation: AAM45129.1 .
BT000658 mRNA. Translation: AAN31805.1 .
AY084730 mRNA. Translation: AAM61304.1 .
AK221019 mRNA. Translation: BAD94710.1 .
PIRi A96556.
RefSeqi NP_564596.1. NM_104049.3. [Q949Y0-1 ]
UniGenei At.16941.

3D structure databases

ProteinModelPortali Q949Y0.
SMRi Q949Y0. Positions 4-478.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 26821. 4 interactions.
MINTi MINT-1351065.

Protein family/group databases

MEROPSi C19.094.

Proteomic databases

PaxDbi Q949Y0.
PRIDEi Q949Y0.

Protocols and materials databases

DNASUi 841596.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT1G51710.1 ; AT1G51710.1 ; AT1G51710 . [Q949Y0-1 ]
GeneIDi 841596.
KEGGi ath:AT1G51710.

Organism-specific databases

TAIRi AT1G51710.

Phylogenomic databases

eggNOGi NOG286607.
HOGENOMi HOG000202292.
InParanoidi Q949Y0.
KOi K11843.
OMAi DWGNLKI.
PhylomeDBi Q949Y0.

Enzyme and pathway databases

BioCyci ARA:AT1G51710-MONOMER.
ARA:GQT-1079-MONOMER.

Gene expression databases

ArrayExpressi Q949Y0.
Genevestigatori Q949Y0.

Family and domain databases

InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR000626. Ubiquitin-like.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR028889. UCH/PAN2.
[Graphical view ]
Pfami PF00240. ubiquitin. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view ]
SMARTi SM00213. UBQ. 1 hit.
[Graphical view ]
SUPFAMi SSF54236. SSF54236. 1 hit.
PROSITEi PS00299. UBIQUITIN_1. 1 hit.
PS50053. UBIQUITIN_2. 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], GENE FAMILY ORGANIZATION, NOMENCLATURE.
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [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. "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].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. "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 (MAR-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 336-482.
    Strain: cv. Columbia.
  7. "Arabidopsis ubiquitin-specific protease 6 (AtUBP6) interacts with calmodulin."
    Moon B.C., Choi M.S., Kang Y.H., Kim M.C., Cheong M.S., Park C.Y., Yoo J.H., Koo S.C., Lee S.M., Lim C.O., Cho M.J., Chung W.S.
    FEBS Lett. 579:3885-3890(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH CALMODULIN, MUTAGENESIS OF CYS-113; TRP-175 AND LEU-178.

Entry informationi

Entry nameiUBP6_ARATH
AccessioniPrimary (citable) accession number: Q949Y0
Secondary accession number(s): Q56ZE7, Q9C8H9, Q9FPT4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: December 1, 2001
Last modified: June 11, 2014
This is version 90 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

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