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Protein Overview: SKI3

General Information:
Name(s) found: SKI3 / YPR189W [SGD]
Description(s) found:
Found 26 descriptions.
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  • Ski complex component and TPR protein, mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1432 amino acids

    Gene Ontology:
    Cellular Component: nucleus [TASLink to PubMed article]
    cytoplasm [IDALink to PubMed article]
    Biological Process: response to exogenous dsRNA [IMPLink to PubMed article]
    mRNA catabolic process [IMPLink to PubMed article][TASLink to PubMed article]
    Molecular Function: translation repressor activity [TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDIKQLLKE AKQELTNRDY EETIEISEKV LKLDPDNYFA HIFLGKALSS LPASNNVSSN  60
   61 RNLERATNHY VSAAKLVPDN LLAWKGLFLL FRTTEVVPDI LSYDEYFDLC GQYADALLKQ 120
  121 EQSQVELIND IKLLKKTHPD CQKAFYQHLK PGSLMAETIG RHLSTPQDAL LNLIKILSNI 180
  181 ETTEIGKTLS QNRLKLKASD PDYQIKLNSF SWEIIKNSEI DQLYNQLVNI LADDQKRSEI 240
  241 ENQWLEYRIK VLKSMPLDVK KDFFTKVKEM VEDMVLVNHQ SLLAWQKYFE WTDYEDLDNM 300
  301 DAPLIIKYFK KFPKDPLAMI LYSWLSSKLS KYDIKSLESA NKPPEGHKKT EKETDIKDVD 360
  361 ETNEDEVKDR VEDEVKDRVE DEVKDQDEEA KEDEEEDLDD IEIGLLEEEV VTVLTENIVK 420
  421 CKNNILAHRI LCQYYLLTKE YEAALPYIKN GISLIAYNIK DLGVHLPLTK REFSLDLATV 480
  481 YTYVDAPKDH NAALKLYDNI LSGDFSNIQA KMGKGIIFIE RKNWKDAMTL LTQVHEQSPN 540
  541 NLEVLSELSW SKAHMGYMDE ALAGLDTVIK GIKGMDLRSI DFRALNLWRQ AKVYIMKHAS 600
  601 INDAKQENVK CAFKLLIQSI KILDTFAPGF STLGDIYCHY YKDHLRAFKC YFKAFDLDAG 660
  661 DYTAAKYITE TYASKPNWQA ASSIASRLIK GEKAKAELRS NNWPFRVVGI AHLEKQEESD 720
  721 SIEWFQSALR VDPNDVESWV GLGQAYHACG RIEASIKVFD KAIQLRPSHT FAQYFKAISL 780
  781 CDVGEYLESL DILEKVCQEA ATEESFQIGL VEVLMRCSLD LYSQGFLLKS VSIAKDTIER 840
  841 IKIIISELKC ENQQVWIYLS QVLRLFIWIE SKVDTLPVES LVSIFENSQF SGSEEIDSVD 900
  901 NIKIDTLLDS TTDDNVSIAC KFLILASKYS VSDQKFTDIA GTVRASYWYN IGISELTAFI 960
  961 TLKEPQYRDA AIFAFKKSIQ LQSNTSETWI GLGIATMDIN FRVSQHCFIK ATALEPKATN1020
 1021 TWFNLAMLGL KKKDTEFAQQ VLNKLQSLAP QDSSPWLGMA LILEEQGDII GSSKLFAHSF1080
 1081 ILSNGRSKAA QFMYAKNVLE NHINNGDDER DIETVEKLTT ASIALEQFFK KSPDSQFALQ1140
 1141 CALLTLERLH HYENANELAN RLIGILEKKF EKTQDERELF NFAIIKGQFA RIHLGLGNFE1200
 1201 LSIENADLSQ GIISESSDEK SMKTKISNHI CLGLSYFFLN DFDQTLNQFQ ELLSISKDSK1260
 1261 HLVVLIAKVL YDVGESDTKE IALQELTEYI ATSGADLLVT LTIAAMSILD DKREDLSIIL1320
 1321 EELKALPLSK QIIDKHKDAP YLIEEITKRL YRNDTGKQVW QRSAYFFPNN LKVWERLDKN1380
 1381 IQRRIASNGQ NKVTAEEMSK LYCESKNLRS IQRGMFLCPW NVTAVKALNE CF

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) RRP43 SKI2 SKI3 SKI7 SKI8 YKL023W
    View Details Krogan NJ, et al. (2006) ENT5 SKI2 SKI3 SKI8 YKL023W
    View Details Gavin AC, et al. (2006) SKI2 SKI3 SKI8
    View Details Gavin AC, et al. (2002) AMN1 ASC1 BEM2 BUD14 CSL4 DIS3 ECM16 KIN3 LRP1 MIS1 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SCP160 SKI2 SKI3 SKI6 SKI7 SRP1 SSZ1 TIF4631 UTP10 UTP20 UTP22 YIR035C ZUO1
    View Details Ho Y, et al. (2002) AKL1 SKI2 SKI3 SKI8

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run MLP2 #29 Asynchronous Prep5-TiO2 Flowthrough Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    NOT SHOWING SINGLE HITS. [ Show 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 SKI3 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..179] MSA 10.193996 View MSA. No confident structure predictions are available.
    2 View Details [180..386] MSA 1.565997 View MSA. No confident structure predictions are available.
    3 View Details [387..732] PSI-BLAST 20.0 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
    4 View Details [733..849] PSI-BLAST 18.0 Designed protein cTPR3
    5 View Details [850..935] deduced N/A No confident structure predictions are available.
    6 View Details [936..1149] PSI-BLAST 4.69897 Protein farnesyltransferase alpha-subunit
    7 View Details [1150..1221] PSI-BLAST 7.39794 Hop
    8 View Details [1222..1432] MSA 9.537997 View MSA. No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • binding
    		•  1.415772038524 bayes_pls_golite062009
  • protein binding
    		•  0.816793912043238 bayes_pls_golite062009
  • RNA binding
    		•  0.663379880504337 bayes_pls_golite062009
  • nucleic acid binding
    		•  0.272790651314508 bayes_pls_golite062009
  • hydrolase activity
    		•  0.271487362607254 bayes_pls_golite062009
  • transcription regulator activity
    		•  0.22530421898958 bayes_pls_golite062009
  • DNA binding
    		•  9.99975086740101E-4 bayes_pls_golite062009
    2 No functions predicted.
    3
    Term Confidence Notes
  • binding
    		•  1.48701537593139 bayes_pls_golite062009
  • protein binding
    		•  0.931467806305272 bayes_pls_golite062009
  • RNA binding
    		•  0.675746721046834 bayes_pls_golite062009
  • hydrolase activity
    		•  0.252678932946087 bayes_pls_golite062009
  • nucleic acid binding
    		•  0.25258244124997 bayes_pls_golite062009
  • transcription regulator activity
    		•  0.221255948377457 bayes_pls_golite062009
    4 No functions predicted.
    5 No functions predicted.
    6 No functions predicted.
    7 No functions predicted.
    8 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