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Protein Overview: SKI6

General Information:
Name(s) found: SKI6 / YGR195W [SGD]
Description(s) found:
Found 35 descriptions.
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  • Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp41p (EXOSC4) [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 246 amino acids

    Gene Ontology:
    Cellular Component: cytoplasmic exosome (RNase complex) [IDALink to PubMed article]
    nuclear exosome (RNase complex) [IDALink to PubMed article]
    nuclear outer membrane [TASLink 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: 3'-5'-exoribonuclease activity [IMPLink to PubMed article][TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRLEIYSPE GLRLDGRRWN ELRRFESSIN THPHAADGSS YMEQGNNKII TLVKGPKEPR  60
   61 LKSQMDTSKA LLNVSVNITK FSKFERSKSS HKNERRVLEI QTSLVRMFEK NVMLNIYPRT 120
  121 VIDIEIHVLE QDGGIMGSLI NGITLALIDA GISMFDYISG ISVGLYDTTP LLDTNSLEEN 180
  181 AMSTVTLGVV GKSEKLSLLL VEDKIPLDRL ENVLAIGIAG AHRVRDLMDE ELRKHAQKRV 240
  241 SNASAR

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) CSL4 DIS3 LRP1 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7 SRP1
    View Details (MIPS) Mewes HW, et al. (2004) DIS3 RRP4 RRP42 RRP43 RRP45 RRP46 SKI6
    View Details Krogan NJ, et al. (2006) CSL4 DDI1 DIS3 ENT3 LRP1 MPP6 MTR3 OSM1 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7 YBL055C
    View Details Gavin AC, et al. (2006) CSL4 DIS3 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7
    View Details Gavin AC, et al. (2002) CMD1 CSL4 CTR9 DIS3 ECM16 GCN1 LRP1 MAM33 MLC1 MTR3 MYO2 NMD5 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SAM1 SHE4 SKI2 SKI3 SKI6 SKI7 SRP1 UTP10 UTP20 UTP22 YIR035C
    View Details Qiu et al. (2008) CSL4 DIS3 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6

    Mass Spectrometry Data

    No mass spectrometry results found for this protein.

    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 SKI6 and NOP56 Huh WK, et al. (2003)
    View Data SKI6 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..23]
    [160..223]    		 PSI-BLAST 55.69897 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5
    2 View Details [24..159]
    [224..246]    		 PSI-BLAST 55.69897 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • exoribonuclease activity
    		•  7.55877202113513 bayes_pls_golite062009
  • ribonuclease activity
    		•  7.54644729272203 bayes_pls_golite062009
  • exoribonuclease activity, producing 5'-phosphomonoesters
    		•  7.5310318714913 bayes_pls_golite062009
  • 3'-5'-exoribonuclease activity
    		•  6.46930372693262 bayes_pls_golite062009
  • 3'-5' exonuclease activity
    		•  4.29895100594643 bayes_pls_golite062009
  • exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  3.83939403332553 bayes_pls_golite062009
  • exonuclease activity
    		•  3.40686901061667 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  2.86434572018929 bayes_pls_golite062009
  • RNA binding
    		•  2.05527376734941 bayes_pls_golite062009
  • structural constituent of ribosome
    		•  1.90115575554186 bayes_pls_golite062009
  • structural molecule activity
    		•  1.69321127364043 bayes_pls_golite062009
  • hydrolase activity
    		•  1.55476709794855 bayes_pls_golite062009
  • binding
    		•  1.3018457178158 bayes_pls_golite062009
  • transcription regulator activity
    		•  1.20748032530392 bayes_pls_golite062009
  • mRNA binding
    		•  1.17402119891853 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.05662964529454 bayes_pls_golite062009
  • catalytic activity
    		•  0.878454819018611 bayes_pls_golite062009
  • DNA binding
    		•  0.828609700556836 bayes_pls_golite062009
  • nuclease activity
    		•  0.69721312877891 bayes_pls_golite062009
  • carbohydrate kinase activity
    		•  0.51810239718467 bayes_pls_golite062009
  • tRNA-specific ribonuclease activity
    		•  0.383567539949931 bayes_pls_golite062009
  • ATP-dependent peptidase activity
    		•  0.1173709890655 bayes_pls_golite062009
  • protein binding
    		•  0.0913090112555771 bayes_pls_golite062009
  • transferase activity, transferring phosphorus-containing groups
    		•  0.0287026367466632 bayes_pls_golite062009
    2 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: 0.91

    Source: Reynolds et al. (2008)

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