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Protein Overview: MTR4

General Information:
Name(s) found: MTR4 / YJL050W [SGD]
Description(s) found:
Found 25 descriptions.
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  • ATP-dependent 3'-5' RNA helicase, involved in nuclear RNA processing and degredation both as a component of the TRAMP complex and in TRAMP independent processes; member of the Dead-box family of helicases [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1073 amino acids

    Gene Ontology:
    Cellular Component: nucleus [IDALink to PubMed article]
    nuclear outer membrane [TASLink to PubMed article]
    nucleolus [IDALink to PubMed article]
    TRAMP complex [IDALink to PubMed articleLink to PubMed article][IPILink to PubMed articleLink to PubMed articleLink to PubMed article]
    Biological Process: mRNA export from nucleus [IMPLink to PubMed article]
    rRNA catabolic process [IMPLink to PubMed article]
    ribosome biogenesis [RCALink to PubMed article]
    tRNA catabolic process [IDALink to PubMed articleLink to PubMed article]
    ncRNA polyadenylation involved in polyadenylation-dependent ncRNA catabolic process [IDALink to PubMed article]
    polyadenylation-dependent ncRNA catabolic process [IMPLink to PubMed article]
    Molecular Function: ATP-dependent RNA helicase activity [ISSLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSTDLFDVF EETPVELPTD SNGEKNADTN VGDTPDHTQD KKHGLEEEKE EHEENNSENK  60
   61 KIKSNKSKTE DKNKKVVVPV LADSFEQEAS REVDASKGLT NSETLQVEQD GKVRLSHQVR 120
  121 HQVALPPNYD YTPIAEHKRV NEARTYPFTL DPFQDTAISC IDRGESVLVS AHTSAGKTVV 180
  181 AEYAIAQSLK NKQRVIYTSP IKALSNQKYR ELLAEFGDVG LMTGDITINP DAGCLVMTTE 240
  241 ILRSMLYRGS EVMREVAWVI FDEVHYMRDK ERGVVWEETI ILLPDKVRYV FLSATIPNAM 300
  301 EFAEWICKIH SQPCHIVYTN FRPTPLQHYL FPAHGDGIYL VVDEKSTFRE ENFQKAMASI 360
  361 SNQIGDDPNS TDSRGKKGQT YKGGSAKGDA KGDIYKIVKM IWKKKYNPVI VFSFSKRDCE 420
  421 ELALKMSKLD FNSDDEKEAL TKIFNNAIAL LPETDRELPQ IKHILPLLRR GIGIHHSGLL 480
  481 PILKEVIEIL FQEGFLKVLF ATETFSIGLN MPAKTVVFTS VRKWDGQQFR WVSGGEYIQM 540
  541 SGRAGRRGLD DRGIVIMMID EKMEPQVAKG MVKGQADRLD SAFHLGYNMI LNLMRVEGIS 600
  601 PEFMLEHSFF QFQNVISVPV MEKKLAELKK DFDGIEVEDE ENVKEYHEIE QAIKGYREDV 660
  661 RQVVTHPANA LSFLQPGRLV EISVNGKDNY GWGAVVDFAK RINKRNPSAV YTDHESYIVN 720
  721 VVVNTMYIDS PVNLLKPFNP TLPEGIRPAE EGEKSICAVI PITLDSIKSI GNLRLYMPKD 780
  781 IRASGQKETV GKSLREVNRR FPDGIPVLDP VKNMKIEDED FLKLMKKIDV LNTKLSSNPL 840
  841 TNSMRLEELY GKYSRKHDLH EDMKQLKRKI SESQAVIQLD DLRRRKRVLR RLGFCTPNDI 900
  901 IELKGRVACE ISSGDELLLT ELIFNGNFNE LKPEQAAALL SCFAFQERCK EAPRLKPELA 960
  961 EPLKAMREIA AKIAKIMKDS KIEVVEKDYV ESFRHELMEV VYEWCRGATF TQICKMTDVY1020
 1021 EGSLIRMFKR LEELVKELVD VANTIGNSSL KEKMEAVLKL IHRDIVSAGS LYL

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) AIR1 AIR2 MTR4 NAB3 PAP2 PRP43
    View Details Krogan NJ, et al. (2006) AIR1 AIR2 MTR4 PAP2 PSO2 RPL18A, RPL18B STE4 TRF5
    View Details Gavin AC, et al. (2006) MTR4 NAB3 NRD1 SEN1 STO1
    View Details Gavin AC, et al. (2002) ACE2 ALT2 BCK1 CDC11 DRE2 ECM30 ENP2 GCN1 IML1 MNL1 MTR4 MYO2 NAB3 RGC1 SEC3 UBP15 YBL044W YJR098C YNL313C
    View Details Ho Y, et al. (2002) AIR1 AIR2 IMD1 IMD3 IMD4 MTR4 NAP1 NOP53 NOP56 PAP2 PSE1
    View Details Qiu et al. (2008) AIR1 AIR2 DBP10 DBP3 DBP6 DBP7 DBP8 DHR2 DRS1 FAL1 GAR1 HAS1 HCA4 MAK5 MTR4 NSR1 PAP2 POP1 RNT1 RRP3 SPB4 SUB2 UTP13 UTP18 UTP4 UTP6 UTP9

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run ASF1 sample 3121 run on DecaLCQ: searched for phosphorylation Green EM, et al (2005)
    View Run CEP3 sample cbf3 from feb 2005 Sandall S, et all (2006)
    View Run MLP2 #29 Asynchronous Prep5-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #30 Asynchronous Prep6-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #11 Mitotic Prep1-TiO2 enriched, new search criteria 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 MTR4 and NOP56 Huh WK, et al. (2003)
    View Data MTR4 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..109] deduced N/A No confident structure predictions are available.
    2 View Details [110..321] PSI-BLAST 89.522879 Putative DEAD box RNA helicase
    3 View Details [322..455] PSI-BLAST 89.522879 Putative DEAD box RNA helicase
    4 View Details [456..636] PSI-BLAST 25.39794 Initiation factor 4a
    5 View Details [637..752] deduced N/A No confident structure predictions are available.
    6 View Details [753..838]
    [852..859]
    [940..1073]    		 ORFEUS 8.05 (+)-bornyl diphosphate synthase
    7 View Details [839..851]
    [860..939]    		 ORFEUS 8.05 (+)-bornyl diphosphate synthase

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • nucleoside-triphosphatase activity
    		•  2.95079405147356 bayes_pls_golite062009
  • pyrophosphatase activity
    		•  2.87427509025394 bayes_pls_golite062009
  • hydrolase activity, acting on acid anhydrides
    		•  2.85499564954033 bayes_pls_golite062009
  • hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
    		•  2.85178667290149 bayes_pls_golite062009
  • binding
    		•  2.64537357529343 bayes_pls_golite062009
  • transporter activity
    		•  2.58140740499725 bayes_pls_golite062009
  • hydrolase activity
    		•  2.55157966585974 bayes_pls_golite062009
  • transmembrane transporter activity
    		•  2.39695871109024 bayes_pls_golite062009
  • ATPase activity
    		•  2.39535714892224 bayes_pls_golite062009
  • ATPase activity, coupled
    		•  2.18396165590908 bayes_pls_golite062009
  • RNA helicase activity
    		•  1.42791449104435 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.41477043612798 bayes_pls_golite062009
  • RNA-dependent ATPase activity
    		•  1.39335733374328 bayes_pls_golite062009
  • ATP-dependent RNA helicase activity
    		•  1.36724390116598 bayes_pls_golite062009
  • motor activity
    		•  1.34881124154297 bayes_pls_golite062009
  • substrate-specific transporter activity
    		•  1.29730375126024 bayes_pls_golite062009
  • protein binding
    		•  1.22129154759482 bayes_pls_golite062009
  • DNA binding
    		•  1.11699929651302 bayes_pls_golite062009
  • catalytic activity
    		•  1.00104173493322 bayes_pls_golite062009
  • transcription regulator activity
    		•  0.989226939888218 bayes_pls_golite062009
  • purine nucleotide binding
    		•  0.929901285538132 bayes_pls_golite062009
  • nucleotide binding
    		•  0.922442819194247 bayes_pls_golite062009
  • purine ribonucleotide binding
    		•  0.920987930180051 bayes_pls_golite062009
  • ribonucleotide binding
    		•  0.920926158369519 bayes_pls_golite062009
  • substrate-specific transmembrane transporter activity
    		•  0.906554174337376 bayes_pls_golite062009
  • ribonuclease activity
    		•  0.712344060953362 bayes_pls_golite062009
  • helicase activity
    		•  0.6191010101321 bayes_pls_golite062009
  • ligase activity
    		•  0.491120745447751 bayes_pls_golite062009
    		• 0.442119153778711 bayes_pls_golite062009
  • active transmembrane transporter activity
    		•  0.434775387083003 bayes_pls_golite062009
  • ATP binding
    		•  0.41092997612902 bayes_pls_golite062009
  • adenyl ribonucleotide binding
    		•  0.385813421701492 bayes_pls_golite062009
  • adenyl nucleotide binding
    		•  0.377870145186619 bayes_pls_golite062009
  • ion transmembrane transporter activity
    		•  0.355466224802969 bayes_pls_golite062009
  • microtubule motor activity
    		•  0.32730260506261 bayes_pls_golite062009
  • purine NTP-dependent helicase activity
    		•  0.29664013896754 bayes_pls_golite062009
  • ATP-dependent helicase activity
    		•  0.29664013896754 bayes_pls_golite062009
  • primary active transmembrane transporter activity
    		•  0.294474570607914 bayes_pls_golite062009
  • P-P-bond-hydrolysis-driven transmembrane transporter activity
    		•  0.282352478532746 bayes_pls_golite062009
  • hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
    		•  0.220608508617331 bayes_pls_golite062009
  • ATPase activity, coupled to transmembrane movement of substances
    		•  0.219533217661421 bayes_pls_golite062009
  • ATPase activity, coupled to movement of substances
    		•  0.219157471322311 bayes_pls_golite062009
  • GTPase activity
    		•  0.105546189348878 bayes_pls_golite062009
  • microfilament motor activity
    		•  0.10236059675512 bayes_pls_golite062009
  • transcription factor activity
    		•  0.0434163635422169 bayes_pls_golite062009
  • protein transporter activity
    		•  0.0397092337273124 bayes_pls_golite062009
  • guanyl nucleotide binding
    		•  0.0289841199143713 bayes_pls_golite062009
  • RNA binding
    		•  0.0261282189186349 bayes_pls_golite062009
  • cation transmembrane transporter activity
    		•  0.0254369227200564 bayes_pls_golite062009
  • guanyl ribonucleotide binding
    		•  0.0187537754688351 bayes_pls_golite062009
  • GTP binding
    		•  0.0171298013679982 bayes_pls_golite062009
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6 No functions predicted.
    7 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