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Protein Overview: RNT1

General Information:
Name(s) found: RNT1 / YMR239C [SGD]
Description(s) found:
Found 25 descriptions.
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  • RNAase III; involved in rDNA transcription and rRNA processing; also cleaves a stem-loop structure at the 3' end of U2 snRNA to ensure formation of the correct U2 3' end; involved in polyadenylation-independent transcription termination [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 471 amino acids

    Gene Ontology:
    Cellular Component: nuclear outer membrane [TASLink to PubMed article]
    nucleolus [IDALink to PubMed article]
    nucleoplasm [IDALink to PubMed article]
    Biological Process: ribosome biogenesis [RCALink to PubMed article]
    Molecular Function: ribonuclease III activity [IDALink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGSKVAGKKK TQNDNKLDNE NGSQQRENIN TKTLLKGNLK ISNYKYLEVI QLEHAVTKLV  60
   61 ESYNKIIELS PNLVAYNEAV NNQDRVPVQI LPSLSRYQLK LAAELKTLHD LKKDAILTEI 120
  121 TDYENEFDTE QKQPILQEIS KADMEKLEKL EQVKREKREK IDVNVYENLN EKEDEEEDEG 180
  181 EDSYDPTKAG DIVKATKWPP KLPEIQDLAI RARVFIHKST IKDKVYLSGS EMINAHNERL 240
  241 EFLGDSILNS VMTLIIYNKF PDYSEGQLST LRMNLVSNEQ IKQWSIMYNF HEKLKTNFDL 300
  301 KDENSNFQNG KLKLYADVFE AYIGGLMEDD PRNNLPKIRK WLRKLAKPVI EEATRNQVAL 360
  361 EKTDKLDMNA KRQLYSLIGY ASLRLHYVTV KKPTAVDPNS IVECRVGDGT VLGTGVGRNI 420
  421 KIAGIRAAEN ALRDKKMLDF YAKQRAAIPR SESVLKDPSQ KNKKRKFSDT S

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details (MIPS) Mewes HW, et al. (2004) DRS1 GAR1 IFH1 NOP1 NPL3 NSR1 POP1 POP2 RAT1 RNT1 RRP3 SBP1 SNM1 SRD1 UTP10 UTP11 UTP13 UTP4 UTP5 UTP6 UTP7 UTP8 UTP9 YME2
    View Details Krogan NJ, et al. (2006) BMS1 BPL1 RCL1 RNT1 SMF3
    View Details Ho Y, et al. (2002) DIS3 EAF3 FIP1 HAS1 HPR1 KAP95 MES1 MFT1 NAM8 NOP6 NUP1 NUP2 NUP60 PAP1 PCT1 REB1 RNT1 RRP4 RRP43 RRP6 RTT103 SIF2 SIN3 SNU56 SRP1 STO1 THO2 TRA1 UME1 YPR090W
    View Details Qiu et al. (2008) AIR1 BFR2 BRX1 CBF5 DBP3 DBP6 DBP7 DBP8 DRS1 FAL1 GAR1 HCA4 KRI1 MAK5 MTR4 NAN1 NOG2 NOP1 NOP13 NOP4 NSR1 NUG1 POP1 POP5 RAT1 RNT1 RPP1 RRP3 SNM1 SPB4 UTP10 UTP15 UTP18 UTP4 UTP5 UTP6 UTP8 UTP9

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run CEP3 sample cbf3 from feb 2005 Sandall S, et all (2006)
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    SHOWING SINGLE HITS. [ Hide Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

      BAIT PREY HITS PUBLICATION
    View Screen RAD51 RNT1 1 Unpublished Fields Lab Data
    View Screen GYP6 RNT1 1 Unpublished Fields Lab Data
    View Screen UBC7 RNT1 1 Unpublished Fields Lab Data

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data RNT1 Huh WK, et al. (2003)
    View Data RNT1 and NOP56 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..112] MSA 1.00596 View MSA. No confident structure predictions are available.
    2 View Details [113..180] deduced N/A Confident ab initio structure predictions are available.
    3 View Details [181..359] PSI-BLAST 25.69897 RNase III endonuclease catalytic domain
    4 View Details [360..471] PSI-BLAST 10.154902 Staufen, domain III

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • endoribonuclease activity, producing 5'-phosphomonoesters
    		•  2.96839328209237 bayes_pls_golite062009
  • ribonuclease activity
    		•  2.94599627195218 bayes_pls_golite062009
  • endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  2.83903486346863 bayes_pls_golite062009
  • ribonuclease III activity
    		•  2.48909442352541 bayes_pls_golite062009
  • nuclease activity
    		•  2.39439402087394 bayes_pls_golite062009
  • binding
    		•  2.32833343930107 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.98461935735212 bayes_pls_golite062009
  • endonuclease activity
    		•  1.82613111953108 bayes_pls_golite062009
  • RNA binding
    		•  1.43330249905245 bayes_pls_golite062009
  • catalytic activity
    		•  1.04704963996426 bayes_pls_golite062009
  • endoribonuclease activity
    		•  1.01755329276132 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  0.627113558693086 bayes_pls_golite062009
  • protein binding
    		•  0.625556404096386 bayes_pls_golite062009
    3
    Term Confidence Notes
  • binding
    		•  3.81869789149138 bayes_pls_golite062009
  • nucleic acid binding
    		•  3.63840462420908 bayes_pls_golite062009
  • RNA binding
    		•  3.49736268261512 bayes_pls_golite062009
  • transcription regulator activity
    		•  2.36373437225982 bayes_pls_golite062009
  • DNA binding
    		•  2.27199216614247 bayes_pls_golite062009
  • protein binding
    		•  1.64057905923545 bayes_pls_golite062009
  • double-stranded RNA binding
    		•  1.46317494664076 bayes_pls_golite062009
  • structural constituent of ribosome
    		•  1.43500771925528 bayes_pls_golite062009
  • structural molecule activity
    		•  1.28116258970047 bayes_pls_golite062009
  • transcription factor activity
    		•  1.06321736079473 bayes_pls_golite062009
  • transcription activator activity
    		•  0.434769929118334 bayes_pls_golite062009
  • cytoskeletal protein binding
    		•  0.403469167264307 bayes_pls_golite062009
  • transcription repressor activity
    		•  0.184664228687648 bayes_pls_golite062009
    4 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