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Protein Overview: YPL060C-A

General Information:
Name(s) found: YPL060C-A [SGD]
Description(s) found:
Found 11 descriptions.
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  • TyA Gag protein; the main structural constituent of virus-like particles (VLPs) [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1104 amino acids

    Gene Ontology:
    Cellular Component: retrotransposon nucleocapsid [ISSLink to PubMed article]
    Biological Process: transposition, RNA-mediated [ISSLink to PubMed article]
    Molecular Function: RNA binding [ISSLink to PubMed article]
    protein binding [ISSLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATPVRDETR NVIDDNISAR IQSKVKTNDT VRQTPSSLRK VSIKDEQVKQ YQRNLNRFKT  60
   61 ILNGLKAEEE KLSETDDIQM LAEKLLKLGE TIDKVENRIV DLVEKIQLLE TNENNNILHE 120
  121 HIDATGTYYL FDTLTSTNKR FYPKDCVFDY RTNNVENIPI LLNNFKKFIK KYQFDDVFEN 180
  181 DIIEIDPREN EILCKIIKEG LGESLDIMNT NTTDIFRIID GLKNKYRSLH GRDVRIRAWE 240
  241 KVLVDTTCRN SALLMNKLQK LVLMEKWIFS KCCQDCPNLK DYLQEAIMGT LHESLRNSVK 300
  301 QRLYNIPHNV GINHEEFLIN TVIETVIDLS PIADDQIENS CMYCKSVFHC SINCKKKPNR 360
  361 ELRPDSTNFS KTYYLQGAQR QQQLKSSAKE QKSWNKTQKK SNKVYNSKKL VIIDTGSGVN 420
  421 ITNDKTLLHN YEDSNRSTRF FGIGKNSSVS VKGYGYIKIK NGHNNTDNKC LLTYYVPEEE 480
  481 STIISCYDLA KKTKMVLSRK YTRLGNKIIK IKTKIVNGVI HVKMNELIER PSDDSKINAI 540
  541 KPTSSPGFKL NKRSITLEDA HKRMGHTGIQ QIENSIKHNH YEESLDLIKE PNEFWCQTCK 600
  601 ISKATKRNHY TGSMNNHSTD HEPGSSWCMD IFGPVSSSNA DTKRYMLIMV DNNTRYCMTS 660
  661 THFNKNAETI LAQIRKNIQY VETQFDRKVR EINSDRGTEF TNDQIEEYFI SKGIHHILTS 720
  721 TQDHAANGRA ERYIRTIVTD ATTLLRQSNL RVKFWEYAVT SATNIRNCLE HKSTGKLPLK 780
  781 AISRQPVTVR LMSFLPFGEK GIIWNHNHKK LKPSGLPSII LCKDPNSYGY KFFIPSKNKI 840
  841 VTSDNYTIPN YTMDGRVRNT QNIYKSHQFS SHNDNEEDQI ETVTNLCEAL ENYEDDNKPI 900
  901 TRLEDLFTEE ELSQIDSNAK YPSPSNNLEG DLDYVFSDVE ESGDYDVESE LSTTNTSIST 960
  961 DKNKILSNKD FNSELASTEI SISEIDKKGL INTSHIDEDK YDEKVHRIPS IIQEKLVGSK1020
 1021 NTIKINDENR ISDRIRSKNI GSILNTGLSR CVDITDESIT NKDESMHNAK PELIQEQFNK1080
 1081 TNHETSFPKE GSIGTKCKIP KYRQ

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Qiu et al. (2008) YDR210C-C YDR210C-D YDR210W-B YOL103W-B YOR343W-A YOR343W-B YPL060C-A

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run NOP9 No Comments Hazbun TR, et al. (2003)

    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

    No microscopy data found in the PDR for this protein.

    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..122] MSA 1.05099 View MSA. No confident structure predictions are available.
    2 View Details [123..543] PSI-BLAST 45.69897 HIV RNase H (Domain of reverse transcriptase); HIV-1 reverse transcriptase
    3 View Details [544..868] PSI-BLAST 43.30103 N-terminal Zn binding domain of HIV integrase; Retroviral integrase, catalytic domain
    4 View Details [869..1007] MSA 1.37499 View MSA. No confident structure predictions are available.
    5 View Details [1008..1104] deduced N/A No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • nucleotidyltransferase activity
    		•  2.08067737569595 bayes_pls_golite062009
  • DNA polymerase activity
    		•  1.30231569478597 bayes_pls_golite062009
  • DNA-directed DNA polymerase activity
    		•  1.29719382213292 bayes_pls_golite062009
  • transferase activity, transferring phosphorus-containing groups
    		•  1.19125536460488 bayes_pls_golite062009
  • ribonuclease activity
    		•  0.969438660919194 bayes_pls_golite062009
  • binding
    		•  0.681153419173075 bayes_pls_golite062009
  • transferase activity
    		•  0.564818692007078 bayes_pls_golite062009
  • catalytic activity
    		•  0.506386500680103 bayes_pls_golite062009
  • DNA-directed RNA polymerase activity
    		•  0.139403453656723 bayes_pls_golite062009
  • RNA polymerase activity
    		•  0.139403453656723 bayes_pls_golite062009
  • nucleic acid binding
    		•  0.0649376648268392 bayes_pls_golite062009
  • DNA binding
    		•  0.0337904155200424 bayes_pls_golite062009
    3
    Term Confidence Notes
  • nuclease activity
    		•  1.94987701094917 bayes_pls_golite062009
  • ribonuclease activity
    		•  0.969438660919194 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  0.787213833707638 bayes_pls_golite062009
  • exonuclease activity
    		•  0.738049151007118 bayes_pls_golite062009
  • catalytic activity
    		•  0.709734459150736 bayes_pls_golite062009
  • 3'-5' exonuclease activity
    		•  0.332143782945747 bayes_pls_golite062009
  • hydrolase activity
    		•  0.301910249637397 bayes_pls_golite062009
  • binding
    		•  0.205040227344888 bayes_pls_golite062009
    4 No functions predicted.
    5 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: 0.99

    Source: Reynolds et al. (2008)

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