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Protein Overview: YLR035C-A

General Information:
Name(s) found: YLR035C-A [SGD]
Description(s) found:
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  • gi|6323064|ref|NP_013136.1| Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon; Ylr035 [NCBI NR]
  • Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon [SGD]
  • YLR035C-A, Chr XII from 215441-218908, reverse complement [yeast_orfs2]
  • Chr XII from 215441-218908, reverse complement [yeastorf3.fasta]
  • Chr XII from 218908-215441, reverse complement [yeastorf5.fasta]
  • YLR035C-A SGDID:S0007225, Chr XII from 218908-215441, reverse complement, Ty ORF [yeastflysequest.fasta]
  • Ty ORF [Saccharomyces cerevisiae] [nrdb_11152004_Chlamydomonas]
  • YLR035C-A SGDID:S000007225, Chr XII from 218908-215441, reverse complement, transposable_element_gene, "Ty ORF" [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta]
  • YLR035C-A SGDID:S000007225, Chr XII from 218908-215441, reverse complement, transposable_element_gene, "Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR [yeast-contam.fasta]
  • Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes; YLR035C-A is part of a mutant retrotransposon; Ylr03 [nr-271106-contam.fasta]
  • YLR035C-A SGDID:S000007225, Chr XII from 218908-215441, reverse complement, transposable_element_gene, "Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon" [yeast-bovrabprots.fasta]
  • YLR035C-A SGDID:S000007225, Chr XII from 218908-215441, reverse complement, transposable_element_gene, "Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes; YLR035C-A is part of a mutant retrotransposon" [yeast-contam_custom.fasta]
  • [chemostatdb.fasta]
  • YLR035C-A SGDID:S000007225, Chr XII from 218907-215440, Genome Release 64-1-1, reverse complement, transposable_element_gene, "Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon" [yeast-030211-contam.fasta]
  • YLR035C-A SGDID:S000007225, Chr XII from 218907-215440, Genome Release 64-2-1, reverse complement, transposable_element_gene, "Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon" [20141208_orf_trans.fasta]
    • Organism: Saccharomyces cerevisiae
    Length: 1155 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 MLAHANAQTI RYSLKNNTIT YFNESDVDWS SAIDYQCPDC LIGKSTKHRH IKGSRLKYQN  60
   61 SYEPFQYLHT DIFGPVHNLP KSAPSYFISF TDETTKFRWV YPLHDRREDS ILDVFTTILA 120
  121 FIKNQFQASV LVIQMDRGSE YTNRTLHKFL EKNGITPCYT TTADSRAHGV AERLNRTLLD 180
  181 DCRTQLQCSG LPNHLWFSAI EFSTIVRNSL ASPKSKKSAR QHAGLAGLDI STLLPFGQPV 240
  241 IVNDHNPNSK IHPRGIPGYA LHPSRNSYGY IIYLPSLKKT VDTTNYVILQ GKESRLDQFN 300
  301 YDALTFDEDL NRLTASYQSF IASNEIQQSD DLNIESDHDF QSDIELHPEQ PRNVLSKAVS 360
  361 PTDSTPPSTH TEDSKRVSKT NIRAPREVDP NISESNILPS KKRSSTPQIS DIESTGSGGM 420
  421 HRLDVPLLAP MSQSNTHESS HASKSKDFRH SDSYSDNETN HTNVPISSTG GTNNKTVPQT 480
  481 SEQETEKRII HRSPSIDTSS SESNSLHHVV PIKTSDTCPK ENTEESIIAD LPLPDLPPEP 540
  541 PTELSDSFKE LPPINSHQTN SSLGGIGDSN AYTTINSKKR SLEDNETEIK VSRDTWNTKN 600
  601 MRSLEPPRSK KRIHLIAAVK AVKSIKPIRT TLRYDEAITY NKDIKEKEKY IQAYHKEVNQ 660
  661 LLKMKTWDTD RYYDRKEIDP KRVINSMFIF NRKRGGTHKA RFVARGDIQH PDTYDPGMQS 720
  721 NTVHHYALMT SLSLASDNNY YITQLDISSA YLYADIKEEL YIRPPPHLGM NDKLIRLKKS 780
  781 LYGLKQSGAN WYETIKSYLI KQCGMEEVRG WSCVFKNSQV TICLFVDDMI LFSKDLNANK 840
  841 KIITTLKKQY DTKIINLGES DNEIQYDILG LEIKYQRGKY MKLGMENSLT EKIPKLNVPL 900
  901 NPKGRKLSAP GQPGLYIDQQ ELELEEDDYK MKVHEMQKLI GLASYVGYKF RFDLLYYINT 960
  961 LAQHILFPSK QVLDMTYELI QFIWNTRDKQ LIWHKSKPVK PTNKLVVISD ASYGNQPYYK1020
 1021 SQIGNIYLLN GKVIGGKSTK ASLTCTSTTE AEIHAISESV PLLNNLSHLV QELNKKPITK1080
 1081 GLLTDSKSTI SIIISNNEEK FRNRFFGTKA MRLRDEVSGN HLHVCYIETK KNIADVMTKP1140
 1141 LPIKTFKLLT NKWIH

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Hazbun TR, et al. (2003) AMN1 AXL2 IMH1 PEX19 PFK27 RAX2 RGT2 RIC1 RIX7 RPA190 SST2 TRX1 TRX2 YLR035C-A
    View Details Ho Y, et al. (2002) ADR1 BBC1 CDC39 CDC53 CRM1 DUR1,2 ECM29 ECM33 FAA4 GAL3 GCN1 HRT1 HYP2 MDN1 MKT1 MMS1 MYO2 PFK1 PMA2 RPA190 RPN1 TPS1 UBI4 VPS13 YAR009C YGP1 YLR035C-A
    View Details Qiu et al. (2008) YDR210C-C YDR210C-D YLR035C-A YOR343W-A YOR343W-B

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RIX7 No Comments Hazbun TR, et al. (2003)
    View Run LST8 No Comments Reinke A, et al. (2004)
    View Run RPA135 his-HA tag on RPA135 Schneider, DA, et al. (2006)
    View Run RPA135 his-HA tag on RPA135 Schneider, DA, et al. (2006)
    View Run RPA135 his-HA tag on RPA135 Schneider, DA, et al. (2006)
    View Run RLF2 cac1: TAP-tagged Green EM, et al (2005)
    View Run MLP2 #04 Alpha Factor Prep2 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 YLR035C-A 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..367] PSI-BLAST 26.0 N-terminal Zn binding domain of HIV integrase; Retroviral integrase, catalytic domain
    2 View Details [368..629] deduced N/A No confident structure predictions are available.
    3 View Details [630..1155] FFAS03 1.41 HIV RNase H (Domain of reverse transcriptase); HIV-1 reverse transcriptase

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    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
    2 No functions predicted.
    3
    Term Confidence Notes
  • nucleotidyltransferase activity
    		•  1.61389461562101 bayes_pls_golite062009
  • transferase activity, transferring phosphorus-containing groups
    		•  0.895925817051023 bayes_pls_golite062009
  • DNA polymerase activity
    		•  0.71944542861368 bayes_pls_golite062009
  • DNA-directed DNA polymerase activity
    		•  0.710149896697621 bayes_pls_golite062009
  • binding
    		•  0.698775322116598 bayes_pls_golite062009
  • ribonuclease activity
    		•  0.519152306822884 bayes_pls_golite062009
  • catalytic activity
    		•  0.443190761359386 bayes_pls_golite062009
  • transferase activity
    		•  0.343279650271418 bayes_pls_golite062009
  • nucleic acid binding
    		•  0.0241260721327641 bayes_pls_golite062009


    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