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Q949Y0 (UBP6_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 90. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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 names
Name:UBP6
Ordered Locus Names:At1g51710
ORF Names:F19C24.8
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length482 AA.
Sequence statusComplete.
Protein existenceEvidence at protein 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 ubiquitinated proteins.

Catalytic activity

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).

Subunit structure

Interacts with calmodulin (CaM). Ref.7

Sequence similarities

Belongs to the peptidase C19 family.

Contains 1 ubiquitin-like domain.

Contains 1 USP domain.

Sequence caution

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

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q949Y0-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 482482Ubiquitin carboxyl-terminal hydrolase 6
PRO_0000313033

Regions

Domain2 – 7776Ubiquitin-like
Domain104 – 478375USP
Region172 – 19120Calmodulin-binding

Sites

Active site1131Nucleophile
Active site4301Proton acceptor By similarity

Experimental info

Mutagenesis1131C → S: Loss of activity. Ref.7
Mutagenesis1751W → R: Abolishes the calmodulin-binding. Ref.7
Mutagenesis1781L → K: Abolishes the calmodulin-binding. Ref.7
Sequence conflict2071Y → F in AAG42751. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified December 1, 2001. Version 1.
Checksum: ECF357E9C5BEF3F7

FASTA48253,696
        10         20         30         40         50         60 
MPTVSVKWQK KVLDGIEIDV SLPPYVFKAQ LYDLTGVPPE RQKIMVKGGL LKDDGDWAAI 

        70         80         90        100        110        120 
GVKDGQKLMM MGTADEIVKA PEKAIVFAED LPEEALATNL GYSAGLVNLG NTCYMNSTVQ 

       130        140        150        160        170        180 
CLKSVPELKS ALSNYSLAAR SNDVDQTSHM LTVATRELFG ELDRSVNAVS PSQFWMVLRK 

       190        200        210        220        230        240 
KYPQFSQLQN GMHMQQDAEE CWTQLLYTLS QSLKAPTSSE GADAVKALFG VNLQSRLHCQ 

       250        260        270        280        290        300 
ESGEESSETE SVYSLKCHIS HEVNHLHEGL KHGLKGELEK TSPALGRTAL YVKESLIDSL 

       310        320        330        340        350        360 
PRYLTVQFVR FFWKRESNQK AKILRKVDYP LVLDIFDLCS EDLRKKLEAP RQKLREEEGK 

       370        380        390        400        410        420 
KLGLQTSAKS GSKDSDVKMT DAEASANGSG ESSTVNPQEG TSSEKETHMT GIYDLVAVLT 

       430        440        450        460        470        480 
HKGRSADSGH YVAWVKQESG KWIQYDDDNP SMQREEDITK LSGGGDWHMA YITMYKARFV 


SM 

« Hide

References

« Hide '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] [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. expand/collapse author list , 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. expand/collapse author list , 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. expand/collapse author list , 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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
PIRA96556.
RefSeqNP_564596.1. NM_104049.3. [Q949Y0-1]
UniGeneAt.16941.

3D structure databases

ProteinModelPortalQ949Y0.
SMRQ949Y0. Positions 4-478.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid26821. 4 interactions.
MINTMINT-1351065.

Protein family/group databases

MEROPSC19.094.

Proteomic databases

PaxDbQ949Y0.
PRIDEQ949Y0.

Protocols and materials databases

DNASU841596.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT1G51710.1; AT1G51710.1; AT1G51710. [Q949Y0-1]
GeneID841596.
KEGGath:AT1G51710.

Organism-specific databases

TAIRAT1G51710.

Phylogenomic databases

eggNOGNOG286607.
HOGENOMHOG000202292.
InParanoidQ949Y0.
KOK11843.
OMADWGNLKI.
PhylomeDBQ949Y0.

Enzyme and pathway databases

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

Gene expression databases

ArrayExpressQ949Y0.
GenevestigatorQ949Y0.

Family and domain databases

InterProIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR000626. Ubiquitin-like.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR028889. UCH/PAN2.
[Graphical view]
PfamPF00240. ubiquitin. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view]
SMARTSM00213. UBQ. 1 hit.
[Graphical view]
SUPFAMSSF54236. SSF54236. 1 hit.
PROSITEPS00299. 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]
ProtoNetSearch...

Entry information

Entry nameUBP6_ARATH
AccessionPrimary (citable) accession number: Q949Y0
Secondary accession number(s): Q56ZE7, Q9C8H9, Q9FPT4
Entry history
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 statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names