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View Structure Prediction Details

Protein: SKI6
Organism: Saccharomyces cerevisiae
Length: 246 amino acids
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



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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for SKI6.

Description E-value Query
Range
Subject
Range
PNP_BACSU - Polyribonucleotide nucleotidyltransferase OS=Bacillus subtilis GN=pnp PE=1 SV=3
gi|221313871 - gi|221313871|ref|ZP_03595676.1| polynucleotide phosphorylase/polyadenylase [Bacillus subtilis subsp....
gi|221318794 - gi|221318794|ref|ZP_03600088.1| polynucleotide phosphorylase/polyadenylase [Bacillus subtilis subsp....
gi|221323066 - gi|221323066|ref|ZP_03604360.1| polynucleotide phosphorylase/polyadenylase [Bacillus subtilis subsp....
PNP_BACSU - Polyribonucleotide nucleotidyltransferase OS=Bacillus subtilis (strain 168) GN=pnp PE=1 SV=3
2.0E-70 [5..245] [308..555]
PNP_BACHD - Polyribonucleotide nucleotidyltransferase OS=Bacillus halodurans GN=pnp PE=3 SV=1
PNP_BACHD - Polyribonucleotide nucleotidyltransferase OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / ...
2.0E-69 [5..245] [306..553]
gi|221142508 - gi|221142508|ref|ZP_03567001.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus su...
PNP_STAA2 - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain JH1) GN=pnp PE=3 SV=1
PNP_STAAN - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain N315) GN=pnp PE=1 SV=1
gi|269202891|ref... - polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus subsp. aureus ED98]
gi|25311828 - pir||E89901 polyribonucleotide nucleotidyltransferase [imported] - Staphylococcus aureus (strain N31...
PNP_STAAM - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) GN=pn...
PNP_STAA1 - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) GN=pnp...
PNP_STAAT - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain USA300 / TCH1516) GN=pnp ...
PNP_STAAE - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain Newman) GN=pnp PE=3 SV=1
PNP_STAA9 - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain JH9) GN=pnp PE=3 SV=1
PNP_STAA8 - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain NCTC 8325) GN=pnp PE=1 SV...
PNP_STAA3 - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain USA300) GN=pnp PE=3 SV=1
PNP_STAAC - Polyribonucleotide nucleotidyltransferase OS=Staphylococcus aureus (strain COL) GN=pnp PE=3 SV=1
gi|253316410 - gi|253316410|ref|ZP_04839623.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus su...
gi|253728542, gi... - gi|253733488|ref|ZP_04867653.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus su...
gi|255006061 - gi|255006061|ref|ZP_05144662.2| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus su...
gi|87126844|gb|A... - polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus aureus subsp. aureus USA300], poly...
7.0E-69 [5..245] [311..558]
PNP_THET2 - Polyribonucleotide nucleotidyltransferase OS=Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM ...
PNP_THETH - Polyribonucleotide nucleotidyltransferase OS=Thermus thermophilus GN=pnp PE=3 SV=1
1.0E-68 [5..245] [319..566]
PNP_LISIN - Polyribonucleotide nucleotidyltransferase OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=pnp ...
PNP_LISIN - Polyribonucleotide nucleotidyltransferase OS=Listeria innocua GN=pnp PE=3 SV=1
2.0E-68 [5..245] [309..556]
gi|47015662, gi|... - gi|47095916|ref|ZP_00233519.1| polyribonucleotide nucleotidyltransferase [Listeria monocytogenes str...
PNP_LISMO - Polyribonucleotide nucleotidyltransferase OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-67...
PNP_LISMO - Polyribonucleotide nucleotidyltransferase OS=Listeria monocytogenes GN=pnp PE=3 SV=1
gi|153183693, gi... - gi|254898504|ref|ZP_05258428.1| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes J...
gi|127765716, gi... - gi|254912005|ref|ZP_05262017.1| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes J...
gi|153174411, gi... - gi|254827592|ref|ZP_05232279.1| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F...
gi|224501726 - gi|224501726|ref|ZP_03670033.1| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F...
gi|254936332, gi... - gi|254936332|ref|ZP_05268029.1| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F...
3.0E-68 [5..245] [309..556]
PNP_RALSO - Polyribonucleotide nucleotidyltransferase OS=Ralstonia solanacearum GN=pnp PE=3 SV=1
PNP_RALSO - Polyribonucleotide nucleotidyltransferase OS=Ralstonia solanacearum (strain GMI1000) GN=pnp PE=3 SV=...
6.0E-68 [7..245] [309..554]
gi|107103839 - gi|107103839|ref|ZP_01367757.1| hypothetical protein PaerPA_01004910 [Pseudomonas aeruginosa PACS2]
gi|84317379, gi|... - gi|84317379|ref|ZP_00965827.1| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph...
gi|194555343, gi... - gi|84323603|ref|ZP_00971672.1| COG1185: Polyribonucleotide nucleotidyltransferase (polynucleotide ph...
PNP_PSEAB - Polyribonucleotide nucleotidyltransferase OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=pnp PE=3 ...
PNP_PSEAE - Polyribonucleotide nucleotidyltransferase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C /...
PNP_PSEAE - Polyribonucleotide nucleotidyltransferase OS=Pseudomonas aeruginosa GN=pnp PE=3 SV=1
PNP_PSEA8 - Polyribonucleotide nucleotidyltransferase OS=Pseudomonas aeruginosa (strain LESB58) GN=pnp PE=3 SV=1
9.0E-68 [5..244] [308..554]
PNP_THESQ - Polyribonucleotide nucleotidyltransferase OS=Thermotoga sp. (strain RQ2) GN=pnp PE=3 SV=1
PNP_THEMA - Polyribonucleotide nucleotidyltransferase OS=Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 310...
PNP_THEMA - Polyribonucleotide nucleotidyltransferase OS=Thermotoga maritima GN=pnp PE=3 SV=1
1.0E-67 [5..244] [309..555]
PNP_PSEPU - Polyribonucleotide nucleotidyltransferase OS=Pseudomonas putida GN=pnp PE=3 SV=1
3.0E-67 [5..244] [308..554]

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Predicted Domain #1
Region A:
Residues: [1-23]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRLEIYSPE GLRLDGRRWN ELR

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [160-223]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GISVGLYDTT PLLDTNSLEE NAMSTVTLGV VGKSEKLSLL LVEDKIPLDR LENVLAIGIA  60
   61 GAHR

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 55.69897
Match: 1e3pA_
Description: 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
Matching Structure (courtesy of the PDB):

Predicted functions:

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

Predicted Domain #2
Region A:
Residues: [24-159]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RFESSINTHP HAADGSSYME QGNNKIITLV KGPKEPRLKS QMDTSKALLN VSVNITKFSK  60
   61 FERSKSSHKN ERRVLEIQTS LVRMFEKNVM LNIYPRTVID IEIHVLEQDG GIMGSLINGI 120
  121 TLALIDAGIS MFDYIS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [224-246]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VRDLMDEELR KHAQKRVSNA SAR

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 55.69897
Match: 1e3pA_
Description: 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
Matching Structure (courtesy of the PDB):

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