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Protein Overview: UFD4

General Information:
Name(s) found: UFD4 / YKL010C [SGD]
Description(s) found:
Found 25 descriptions.
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  • Ubiquitin-protein ligase (E3) that interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1483 amino acids

    Gene Ontology:
    Cellular Component: cytoplasm [IPILink to PubMed article]
    mitochondrion [IDALink to PubMed articleLink to PubMed article]
    Biological Process: protein polyubiquitination [TASLink to PubMed article]
    protein monoubiquitination [TASLink to PubMed article]
    Molecular Function: ubiquitin-protein ligase activity [TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSENNSHNLD EHESHSENSD YMMDTQVEDD YDEDGHVQGE YSYYPDEDED EHMLSSVGSF  60
   61 EADDGEDDDN DYHHEDDSGL LYGYHRTQNG SDEDRNEEED GLERSHDNNE FGSNPLHLPD 120
  121 ILETFAQRLE QRRQTSEGLG QHPVGRTLPE ILSMIGGRME RSAESSARNE RISKLIENTG 180
  181 NASEDPYIAM ESLKELSENI LMMNQMVVDR IIPMETLIGN IAAILSDKIL REELELQMQA 240
  241 CRCMYNLFEV CPESISIAVD EHVIPILQGK LVEISYIDLA EQVLETVEYI SRVHGRDILK 300
  301 TGQLSIYVQF FDFLTIHAQR KAIAIVSNAC SSIRTDDFKT IVEVLPTLKP IFSNATDQPI 360
  361 LTRLVNAMYG ICGALHGVDK FETLFSLDLI ERIVQLVSIQ DTPLENKLKC LDILTVLAMS 420
  421 SDVLSRELRE KTDIVDMATR SFQHYSKSPN AGLHETLIYV PNSLLISISR FIVVLFPPED 480
  481 ERILSADKYT GNSDRGVISN QEKFDSLVQC LIPILVEIYT NAADFDVRRY VLIALLRVVS 540
  541 CINNSTAKAI NDQLIKLIGS ILAQKETASN ANGTYSSEAG TLLVGGLSLL DLICKKFSEL 600
  601 FFPSIKREGI FDLVKDLSVD FNNIDLKEDG NENISLSDEE GDLHSSIEEC DEGDEEYDYE 660
  661 FTDMEIPDSV KPKKISIHIF RTLSLAYIKN KGVNLVNRVL SQMNVEQEAI TEELHQIEGV 720
  721 VSILENPSTP DKTEEDWKGI WSVLKKCIFH EDFDVSGFEF TSTGLASSIT KRITSSTVSH 780
  781 FILAKSFLEV FEDCIDRFLE ILQSALTRLE NFSIVDCGLH DGGGVSSLAK EIKIKLVYDG 840
  841 DASKDNIGTD LSSTIVSVHC IASFTSLNEF LRHRMVRMRF LNSLIPNLTS SSTEADREEE 900
  901 ENCLDHMRKK NFDFFYDNEK VDMESTVFGV IFNTFVRRNR DLKTLWDDTH TIKFCKSLEG 960
  961 NNRESEAAEE ANEGKKLRDF YKKREFAQVD TGSSADILTL LDFLHSCGVK SDSFINSKLS1020
 1021 AKLARQLDEP LVVASGALPD WSLFLTRRFP FLFPFDTRML FLQCTSFGYG RLIQLWKNKS1080
 1081 KGSKDLRNDE ALQQLGRITR RKLRISRKTI FATGLKILSK YGSSPDVLEI EYQEEAGTGL1140
 1141 GPTLEFYSVV SKYFARKSLN MWRCNSYSYR SEMDVDTTDD YITTLLFPEP LNPFSNNEKV1200
 1201 IELFGYLGTF VARSLLDNRI LDFRFSKVFF ELLHRMSTPN VTTVPSDVET CLLMIELVDP1260
 1261 LLAKSLKYIV ANKDDNMTLE SLSLTFTVPG NDDIELIPGG CNKSLNSSNV EEYIHGVIDQ1320
 1321 ILGKGIEKQL KAFIEGFSKV FSYERMLILF PDELVDIFGR VEEDWSMATL YTNLNAEHGY1380
 1381 TMDSSIIHDF ISIISAFGKH ERRLFLQFLT GSPKLPIGGF KSLNPKFTVV LKHAEDGLTA1440
 1441 DEYLPSVMTC ANYLKLPKYT SKDIMRSRLC QAIEEGAGAF LLS

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) UBC4 UFD4
    View Details Krogan NJ, et al. (2006) DRS2 MOT2 UBC4 UBC5 UFD4
    View Details Gavin AC, et al. (2006) AHA1 UFD4
    View Details Ho Y, et al. (2002) APM1 CDC15 CLU1 DUG2 FET3 HYM1 KRE33 KRE6 PEX19 QCR7 RPN1 TEM1 UBC4 UFD4 YBL104C

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run CEP3 sample cbf3 from feb 2005 Sandall S, et all (2006)
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run ZDS1 Sample 2- cpn2 from june 2005 McCusker D, et al (2007)
    View Run MLP2 #24 Asynchronous Prep3-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #03 Alpha Factor Prep1-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #29 Asynchronous Prep5-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    SHOWING SINGLE HITS. [ Hide Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

    No yeast two-hybrid interactions found for this protein.

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data UFD4 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [View Top Sequence Alignments] [Show Ginzu Version Information]

    Domains predicted:

    #   Region(s) Method Confidence Match Description
    1 View Details [1..72] deduced N/A No confident structure predictions are available.
    2 View Details [73..158] PSI-BLAST 2.09691 STRUCTURE OF IMPORTIN BETA BOUND TO THE IBB DOMAIN OF IMPORTIN ALPHA
    3 View Details [159..294] PSI-BLAST 113.0 Importin alpha
    4 View Details [295..343] PSI-BLAST 113.0 Importin alpha
    5 View Details [344..457] PSI-BLAST 113.0 Importin alpha
    6 View Details [458..568] PSI-BLAST 113.0 Importin alpha
    7 View Details [569..670] PSI-BLAST 113.0 Importin alpha
    8 View Details [671..973] deduced N/A No confident structure predictions are available.
    9 View Details [974..1092] PSI-BLAST 3.09691 Ubiquitin ligase NEDD4 WWIII domain
    10 View Details [1093..1138] PSI-BLAST 323.0103 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)
    11 View Details [1139..1263]
    [1318..1360]    		 PSI-BLAST 323.0103 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)
    12 View Details [1264..1317]
    [1361..1483]    		 PSI-BLAST 323.0103 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • binding
    		•  2.86831493830281 bayes_pls_golite062009
  • substrate-specific transmembrane transporter activity
    		•  2.16002474842826 bayes_pls_golite062009
  • monovalent inorganic cation transmembrane transporter activity
    		•  1.81334106667983 bayes_pls_golite062009
  • protein binding
    		•  1.63705839411934 bayes_pls_golite062009
  • hydrogen ion transmembrane transporter activity
    		•  1.4929266246031 bayes_pls_golite062009
  • inorganic cation transmembrane transporter activity
    		•  1.21098157405785 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.13208464017585 bayes_pls_golite062009
  • ion transmembrane transporter activity
    		•  1.1051743850645 bayes_pls_golite062009
  • cation transmembrane transporter activity
    		•  1.03004697855361 bayes_pls_golite062009
  • protein transporter activity
    		•  0.942980596902738 bayes_pls_golite062009
  • substrate-specific transporter activity
    		•  0.820796192007653 bayes_pls_golite062009
  • phosphotransferase activity, alcohol group as acceptor
    		•  0.520600504671387 bayes_pls_golite062009
  • kinase activity
    		•  0.49215920455609 bayes_pls_golite062009
  • transferase activity, transferring phosphorus-containing groups
    		•  0.399777570162093 bayes_pls_golite062009
  • protein kinase activity
    		•  0.304524178731686 bayes_pls_golite062009
  • transferase activity
    		•  0.23030640245878 bayes_pls_golite062009
  • transcription regulator activity
    		•  0.221086931523202 bayes_pls_golite062009
  • DNA binding
    		•  0.171056781378569 bayes_pls_golite062009
    3 No functions predicted.
    4 No functions predicted.
    5
    Term Confidence Notes
  • proline-rich region binding
    		•  2.77294348104858 bayes_pls_golite062009
  • ubiquitin-protein ligase activity
    		•  2.59532734096591 bayes_pls_golite062009
  • binding
    		•  2.42370909657521 bayes_pls_golite062009
  • small conjugating protein ligase activity
    		•  2.41863405676058 bayes_pls_golite062009
  • transcription factor binding
    		•  1.96854466908038 bayes_pls_golite062009
  • histone methyltransferase activity
    		•  1.90194027965368 bayes_pls_golite062009
  • acid-amino acid ligase activity
    		•  1.6967322982151 bayes_pls_golite062009
  • protein binding
    		•  1.36920369713546 bayes_pls_golite062009
  • transcription regulator activity
    		•  1.32260772865135 bayes_pls_golite062009
  • lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • protein-lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • histone-lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • protein methyltransferase activity
    		•  1.121001087082 bayes_pls_golite062009
  • transcription activator activity
    		•  1.06699689139974 bayes_pls_golite062009
  • transcription cofactor activity
    		•  0.9852373289585 bayes_pls_golite062009
  • transcription coactivator activity
    		•  0.91931537361124 bayes_pls_golite062009
  • ligase activity, forming carbon-nitrogen bonds
    		•  0.568363753662296 bayes_pls_golite062009
  • transferase activity
    		•  0.381275448590978 bayes_pls_golite062009
  • transcription repressor activity
    		•  0.2295693429366 bayes_pls_golite062009
  • catalytic activity
    		•  0.210712504691113 bayes_pls_golite062009
  • histone methyltransferase activity (H3-K36 specific)
    		•  0.173723075520888 bayes_pls_golite062009
    6 No functions predicted.
    7 No functions predicted.
    8 No functions predicted.
    9 No functions predicted.
    10 No functions predicted.
    11 No functions predicted.
    12 No functions predicted.


    Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076


    Philius Transmembrane Prediction:

    Protein predicted to be: GLOBULAR (No transmembrane regions or signal peptide)
    Confidence of classification: 0.97

    Source: Reynolds et al. (2008)

    YRC Informatics Platform - Version 3.0
    Created and Maintained by: Michael Riffle