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Q94A97

- UBC35_ARATH

UniProt

Q94A97 - UBC35_ARATH

Protein

Ubiquitin-conjugating enzyme E2 35

Gene

UBC35

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

    Catalyzes the synthesis of non-canonical poly-ubiquitin chains that are linked through 'Lys-63'. This type of poly-ubiquitination does not lead to protein degradation by the proteasome. Mediates transcriptional activation of target genes. Required for postreplication repair of UV-damaged DNA and for adapting root developmental programs to suboptimal availability of iron.3 Publications

    Catalytic activityi

    ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.PROSITE-ProRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei89 – 891Glycyl thioester intermediatePROSITE-ProRule annotation

    GO - Molecular functioni

    1. acid-amino acid ligase activity Source: InterPro
    2. ATP binding Source: UniProtKB-KW
    3. protein binding Source: IntAct
    4. ubiquitin-protein transferase activity Source: TAIR

    GO - Biological processi

    1. postreplication repair Source: TAIR
    2. protein ubiquitination Source: GOC
    3. response to cadmium ion Source: TAIR
    4. response to iron ion Source: TAIR
    5. root epidermal cell differentiation Source: TAIR
    6. ubiquitin-dependent protein catabolic process Source: TAIR

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciARA:AT1G78870-MONOMER.
    ARA:GQT-676-MONOMER.
    ARA:GQT-677-MONOMER.
    UniPathwayiUPA00143.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin-conjugating enzyme E2 35 (EC:6.3.2.19)
    Alternative name(s):
    Ubiquitin carrier protein 35
    Gene namesi
    Name:UBC35
    Synonyms:UBC13A, UBG13A
    Ordered Locus Names:At1g78870
    ORF Names:F9K20.8
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 1

    Organism-specific databases

    TAIRiAT1G78870.

    Subcellular locationi

    GO - Cellular componenti

    1. UBC13-MMS2 complex Source: TAIR

    Pathology & Biotechi

    Disruption phenotypei

    No visible phenotype under normal growth conditions or in phosphate-deficient plants. Unable to form branched root hairs in response to iron-deficient conditions.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 153153Ubiquitin-conjugating enzyme E2 35PRO_0000345200Add
    BLAST

    Proteomic databases

    PaxDbiQ94A97.
    PRIDEiQ94A97.

    Expressioni

    Tissue specificityi

    Ubiquitously expressed at low level. Mainly expressed in the vasculature.3 Publications

    Inductioni

    Not induced by salt, abscisic acid, mannitol, H2O2, low temperature, MMS or iron.2 Publications

    Gene expression databases

    GenevestigatoriQ94A97.

    Interactioni

    Subunit structurei

    Interacts with yeast and human Mms2, with the RING domain of RGLG2 and with UEV1A, UEV1B, UEV1C and UEV1D.3 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    UBE2V2Q158193EBI-994120,EBI-714329From a different organism.

    Protein-protein interaction databases

    BioGridi29443. 6 interactions.
    IntActiQ94A97. 2 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliQ94A97.
    SMRiQ94A97. Positions 6-150.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ubiquitin-conjugating enzyme family.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG5078.
    HOGENOMiHOG000233455.
    InParanoidiQ94A97.
    KOiK10580.
    OMAiYAGNKNE.
    PhylomeDBiQ94A97.

    Family and domain databases

    Gene3Di3.10.110.10. 1 hit.
    InterProiIPR000608. UBQ-conjugat_E2.
    IPR023313. UBQ-conjugating_AS.
    IPR016135. UBQ-conjugating_enzyme/RWD.
    [Graphical view]
    PfamiPF00179. UQ_con. 1 hit.
    [Graphical view]
    SUPFAMiSSF54495. SSF54495. 1 hit.
    PROSITEiPS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
    PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q94A97-1) [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

    MANSNLPRRI IKETQRLLSE PAPGISASPS EDNMRYFNVM ILGPTQSPYE    50
    GGVFKLELFL PEEYPMAAPK VRFLTKIYHP NIDKLGRICL DILKDKWSPA 100
    LQIRTVLLSI QALLSAPNPD DPLSENIAKH WKSNEAEAVD TAKEWTRLYA 150
    SGA 153
    Length:153
    Mass (Da):17,192
    Last modified:December 1, 2001 - v1
    Checksum:i66FDD14FA347A8D0
    GO
    Isoform 2 (identifier: Q94A97-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         51-51: G → GR

    Note: Derived from EST data. May be due to a competing donor splice site. No experimental confirmation available.

    Show »
    Length:154
    Mass (Da):17,348
    Checksum:iE5616F62F3894F92
    GO
    Isoform 3 (identifier: Q94A97-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         109-112: SIQA → RYMS
         113-153: Missing.

    Note: Derived from EST data. May be due to an intron retention. No experimental confirmation available.

    Show »
    Length:112
    Mass (Da):12,851
    Checksum:i99FC71C2CB9C008F
    GO

    Sequence cautioni

    The sequence AAC83026.1 differs from that shown. Reason: Erroneous gene model prediction.

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei51 – 511G → GR in isoform 2. CuratedVSP_034929
    Alternative sequencei109 – 1124SIQA → RYMS in isoform 3. CuratedVSP_034930
    Alternative sequencei113 – 15341Missing in isoform 3. CuratedVSP_034931Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ027048 mRNA. Translation: AAY44874.1.
    AC005679 Genomic DNA. Translation: AAC83026.1. Sequence problems.
    CP002684 Genomic DNA. Translation: AEE36164.1.
    CP002684 Genomic DNA. Translation: AEE36165.1.
    CP002684 Genomic DNA. Translation: AEE36166.1.
    AY049261 mRNA. Translation: AAK83603.1.
    BT000544 mRNA. Translation: AAN18113.1.
    AY085854 mRNA. Translation: AAM63067.1.
    PIRiB96818.
    RefSeqiNP_001031298.1. NM_001036221.2. [Q94A97-3]
    NP_565192.1. NM_106535.3. [Q94A97-1]
    NP_849902.2. NM_179571.2. [Q94A97-2]
    UniGeneiAt.46456.

    Genome annotation databases

    EnsemblPlantsiAT1G78870.2; AT1G78870.2; AT1G78870. [Q94A97-1]
    GeneIDi844224.
    KEGGiath:AT1G78870.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Web resourcesi

    PlantsUBQ

    A functional genomics database for the ubiquitin/26S proteasome proteolytic pathway in plants

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ027048 mRNA. Translation: AAY44874.1 .
    AC005679 Genomic DNA. Translation: AAC83026.1 . Sequence problems.
    CP002684 Genomic DNA. Translation: AEE36164.1 .
    CP002684 Genomic DNA. Translation: AEE36165.1 .
    CP002684 Genomic DNA. Translation: AEE36166.1 .
    AY049261 mRNA. Translation: AAK83603.1 .
    BT000544 mRNA. Translation: AAN18113.1 .
    AY085854 mRNA. Translation: AAM63067.1 .
    PIRi B96818.
    RefSeqi NP_001031298.1. NM_001036221.2. [Q94A97-3 ]
    NP_565192.1. NM_106535.3. [Q94A97-1 ]
    NP_849902.2. NM_179571.2. [Q94A97-2 ]
    UniGenei At.46456.

    3D structure databases

    ProteinModelPortali Q94A97.
    SMRi Q94A97. Positions 6-150.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 29443. 6 interactions.
    IntActi Q94A97. 2 interactions.

    Proteomic databases

    PaxDbi Q94A97.
    PRIDEi Q94A97.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT1G78870.2 ; AT1G78870.2 ; AT1G78870 . [Q94A97-1 ]
    GeneIDi 844224.
    KEGGi ath:AT1G78870.

    Organism-specific databases

    TAIRi AT1G78870.

    Phylogenomic databases

    eggNOGi COG5078.
    HOGENOMi HOG000233455.
    InParanoidi Q94A97.
    KOi K10580.
    OMAi YAGNKNE.
    PhylomeDBi Q94A97.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .
    BioCyci ARA:AT1G78870-MONOMER.
    ARA:GQT-676-MONOMER.
    ARA:GQT-677-MONOMER.

    Gene expression databases

    Genevestigatori Q94A97.

    Family and domain databases

    Gene3Di 3.10.110.10. 1 hit.
    InterProi IPR000608. UBQ-conjugat_E2.
    IPR023313. UBQ-conjugating_AS.
    IPR016135. UBQ-conjugating_enzyme/RWD.
    [Graphical view ]
    Pfami PF00179. UQ_con. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54495. SSF54495. 1 hit.
    PROSITEi PS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
    PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome analysis and functional characterization of the E2 and RING-type E3 ligase ubiquitination enzymes of Arabidopsis."
      Kraft E., Stone S.L., Ma L., Su N., Gao Y., Lau O.-S., Deng X.-W., Callis J.
      Plant Physiol. 139:1597-1611(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY, GENE FAMILY, NOMENCLATURE.
    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] (ISOFORM 1).
      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] (ISOFORM 1).
    6. "Arabidopsis thaliana UBC13: implication of error-free DNA damage tolerance and Lys63-linked polyubiquitylation in plants."
      Wen R., Newton L., Li G., Wang H., Xiao W.
      Plant Mol. Biol. 61:241-253(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH YEAST AND HUMAN MMS2, TISSUE SPECIFICITY, INDUCTION.
    7. Cited for: INTERACTION WITH RGLG2.
    8. "Arabidopsis UEV1D promotes lysine-63-linked polyubiquitination and is involved in DNA damage response."
      Wen R., Torres-Acosta J.A., Pastushok L., Lai X., Pelzer L., Wang H., Xiao W.
      Plant Cell 20:213-227(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH UEV1A; UEV1B; UEV1C AND UEV1D.
    9. "A lysine-63-linked ubiquitin chain-forming conjugase, UBC13, promotes the developmental responses to iron deficiency in Arabidopsis roots."
      Li W., Schmidt W.
      Plant J. 62:330-343(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INDUCTION BY IRON, TISSUE SPECIFICITY, DISRUPTION PHENOTYPE.

    Entry informationi

    Entry nameiUBC35_ARATH
    AccessioniPrimary (citable) accession number: Q94A97
    Secondary accession number(s): Q2V4C1, Q9ZVA6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 22, 2008
    Last sequence update: December 1, 2001
    Last modified: October 1, 2014
    This is version 91 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Partly functionally redundant with UBC36.

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3