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Protein Overview: TOM1

General Information:
Name(s) found: TOM1 / YDR457W [SGD]
Description(s) found:
Found 27 descriptions.
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  • E3 ubiquitin ligase of the hect-domain class; has a role in mRNA export from the nucleus and may regulate transcriptional coactivators; involved in degradation of excess histones [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 3268 amino acids

    Gene Ontology:
    Cellular Component: nucleus [IDALink to PubMed article]
    nucleolus [IDALink to PubMed article]
    Biological Process: nucleocytoplasmic transport [IMPLink to PubMed article]
    protein polyubiquitination [TASLink to PubMed article]
    regulation of cell size [IMPLink to PubMed article]
    mitosis [IMPLink to PubMed article]
    protein monoubiquitination [TASLink to PubMed article]
    nucleus organization [IMPLink to PubMed article]
    Molecular Function: ubiquitin-protein ligase activity [TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVLFTRCEKA RKEKLAAGYK PLVDYLIDCD TPTFLERIEA IQEWDRSRDD LYVWIPILDR  60
   61 MDGLLLKVAE KYKYKQDPKK ECEVKLVEME AHDVDYCLKM LKFTRRLLLN TENRFVYSSG 120
  121 DVLMYLLNCP NFTIKLAVMR ILAILGERFV IAREKIVAHN IFGDHNLRKK TLKLALSLSS 180
  181 SVMDEDGEHF SLVDLYFDKK KVPQKWRKLR FTHYTSNDFK KSSQQKNNIN ETQTSIKKVT 240
  241 MTTQELCEHS LQQIFDKGMA LLPAESWFDF SIKASVAKAF SDDSGENIDL RNIIIETKLN 300
  301 AIAFVNTIFS PPQVSSKLFE LDPYAFNSLT DLISLSETKI PKELRTDALF TLECISLKHV 360
  361 WCSDIIRNLG GNISHGLLFQ ILRYIAKTLR EATDEIDEEY NVRFFYLISN LADVKPLHES 420
  421 LFAAGLIPTL LEIVSIRNCP YKRTLASATH LLETFIDNSE TTTEFIENDG FTMLITSVAN 480
  481 EIDFTLAHPE TWQPPKYSVV YYSISFRELA YIRSLLKLVL KLLSTDSGDR IRNLIDSPIL 540
  541 VSLKKILENK LVFGLTLITY TLDVVQKVIN SEPTIYPVLV EAGLIPYVID NFPKLIGPSA 600
  601 ELLSLLPDVV SAICLNPEGL KQVKEKGLIN NLFDFLLDAD HARILTGGDR STEYGTDIDE 660
  661 LARHYPDLKA NIVEALCNVI RKMPSTFRNE REFLFTSPKD QKYFFHRKNE EILTDKEEHE 720
  721 PAYWELLDKG TMLDTFTSVL FGMSLGNGSF SQVPQHLEAR DFLAIIFMEN PPYEYFTSVA 780
  781 ISNVTEVLQY LDEKYEDYAF MDVMKVLNDQ LENLNDFLNS PNDRSFFLER DGENSVRSCH 840
  841 SKLCRLAAIL NIVTNVYIDL TTLSCKRIMQ IYSYFDKRGF SLIKNLKLLF QKCALEEMYI 900
  901 RQHMPDSVIT ETMPLPIVDV SGDGPPLQIY IDDPKKGDQK GKITSVKTRN TLQMRTILYT 960
  961 LQSNTAILFR CFLRLSHSRN MDLEHKDLTT EVHIFENVVE NVIEMLKATE LEGHLPYILV1020
 1021 LLNFNTFVFT IPKASPNSTE ILQTIPAYIF YQKGGYLLYL HIIRDLFTRM TKIKDLSSLD1080
 1081 NINYIDESNG ILTLSCLINA LTFYNKSMQT ETMENVQSIG KYYVSIDDDY NIMKALTVPI1140
 1141 KVMALAMILD LDKSDSLFKT QSRNVPYSVF KQLLSMLKNI FTNVNIYTKE LYELHWDLIF1200
 1201 PPIKKISLFE QVGIPGDVAA NYLTDTGDDL PADNSIGLFS PEQWEKYKKL IGEDKSIYYP1260
 1261 QPMQAQYYKG CSSKELDELR DTFFNDGLPS RIFTVLPFYP KLVNAFAKTL LQIFTKYDEP1320
 1321 TEVFAGRILD RILETDLDDP ATLSSLIHLF GIFLNEKYIY QKASHLMQRF IEYLEKSLKP1380
 1381 EHVNTPWFSK ALYVYEIILA KSELPHLEEL SKDVLLRYPL LSMAKVFRIP DPMKQKLFDI1440
 1441 LIRVSDISNF YSALATSRIL IFYSRDELYA NNIARSGILS RLLKVIGSFQ KLDKINFLES1500
 1501 SFLLLTRRCF ETTENVDALI RAEINRSFTA RPLGGGDDAV RELTTILEEK AHVVMRSPSQ1560
 1561 FIDVLCETAR FHEFDDQGAL VDYSLKRFLG EKDKNTQASS TEKSDIYERT GIMHLLLSQL1620
 1621 MAASEKDWLS EPANSSDLPE NKKAQLDPSR NPVCAYMIFL LKLLVELVSS YNQCKFEFLT1680
 1681 FSRRNTYAER PRPRTTAINF FLYRLLDKPV GTDHDKHEAK RREVIGMLAR SVIIGFLATV1740
 1741 QDDRTTKTDV KLADPHMNFI RKFAIEAIIK AIRNATSSSK LLESNHLKLD MWFRIITSMV1800
 1801 YVQAPYLRQL LDSNKVEADQ YQLCKLVIDL GLPSVITEAM ASIDLNYPFS KKIFNVAVEA1860
 1861 LNTISSTRNN FSEHFKIEDH DEVEDEVDES DKEEIPDMFK NSALGMYDVE DIEEDDDDDT1920
 1921 SLIGDDDAMA FVDSDNGFEV VFSDEDDDMG EEDADDARSD SEENELSSEM QSSTADGTDV1980
 1981 DYEVDDADGL IINIDQPSGD DEEMADYDAN ISHSSHSENE DDASMDVIEV YDDELSSGYD2040
 2041 VDLSDYDVDE SDWDSGLSSL SISDEDSESS EDEPINSTRM GDSRRRWLIA EGVELTDDSQ2100
 2101 GESEEDDRGV FRGIEHIFSN ENEPLFRVHD EMRHRNHHRS INRTHFHSAM SAPSLSLLNR2160
 2161 GRRNQSNLIN PLGPTGLEQV ENDISDQVTV AGSGSRPRSH HLHFSEVLVS GSFFDEPVLD2220
 2221 GIILKSTVSR WKDIFDMFYD SKTYANCIIP TVINRLYKVS LALQKDLENK REQEKLKNKN2280
 2281 LLFNEAKVES HNSSDAISVE QDDIQESNVT HDDHEPVYVT IQGSEVDIGG TDIDPEFMNA2340
 2341 LPDDIRADVF AQHVRERRAE ARLNSDHNVH SREIDSDFLE AIPEDIREGI LDTEAEEQRM2400
 2401 FGRIGSSADV IRADDDVSNN DEEVENGLDH GNSNDRNNAD PEKKKPARIY FAPLIDRAGI2460
 2461 ASLMKSVFIS KPYIQREIYH ELFYRLCSSK QNRNDLMNTF LFILSEGIID QHSLEKVYNI2520
 2521 ISSRAMGHAK TTTVRQLPSD CTPLTVANQT IEILQSLIDA DSRLKYFLIA EHDNLIVNKA2580
 2581 NNKSRKEALP DKKLRWPLWH LFSLLDRKLI TDESVLMDLL TRILQVCTKT LAVLSTSSNG2640
 2641 KENLSKKFHL PSFDEDDLMK ILSIIMLDSC TTRVFQQTLN IIYNLSKLQG CMSIFTKHLV2700
 2701 SLAISIMSKL KSALDGLSRE VGTITTGMEI NSELLQKFTL PSSDQAKLLK ILTTVDFLYT2760
 2761 HKRKEEERNV KDLQSLYDKM NGGPVWSSLS ECLSQFEKSQ AINTSATILL PLIESLMVVC2820
 2821 RRSDLSQNRN TAVKYEDAKL LDFSKTRVEN LFFPFTDAHK KLLNQMIRSN PKLMSGPFAL2880
 2881 LVKNPKVLDF DNKRYFFNAK LKSDNQERPK LPITVRREQV FLDSYRALFF KTNDEIKNSK2940
 2941 LEITFKGESG VDAGGVTREW YQVLSRQMFN PDYALFLPVP SDKTTFHPNR TSGINPEHLS3000
 3001 FFKFIGMIIG KAIRDQCFLD CHFSREVYKN ILGRPVSLKD MESLDPDYYK SLVWILENDI3060
 3061 TDIIEETFSV ETDDYGEHKV INLIEGGKDI IVTEANKQDY VKKVVEYKLQ TSVKEQMDNF3120
 3121 LVGFYALISK DLITIFDEQE LELLISGLPD IDVDDWKNNT TYVNYTATCK EVSYFWRAVR3180
 3181 SFDAEERAKL LQFVTGTSKV PLNGFKELSG VNGVCKFSIH RDFGSSERLP SSHTCFNQLN3240
 3241 LPPYESYETL RGSLLLAINE GHEGFGLA

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Krogan NJ, et al. (2006) LAG2 TOM1
    View Details Gavin AC, et al. (2006) ADE3 CSE1 MAE1 PRS3 TDH1 TOM1 YDR341C
    View Details Ho Y, et al. (2002) BCY1 CAR2 CPR6 ESS1 HEF3 HSP104 HXT6 MDN1 PUP2 RPB3 RPN1 RPO21 SPT5 TFG1 TOM1 UTP22 YHR033W

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run DAD1 Dam1-765 complex purified from yeast with Dad1-TAP Shimogawa MM, et al. (2006)
    View Run CEP3 sample cbf3 from feb 2005 Sandall S, et all (2006)
    View Run ASF1 3912: TAP-tagged, strain background includes hpc2(delta) Green EM, et al (2005)
    View Run ASF1 3829 - low filter Green EM, et al (2005)
    View Run ZDS1 Sample 2- cpn2 from june 2005 McCusker D, et al (2007)
    View Run BOI1 Sample boi 1 with ha tag from october 2005 McCusker D, et al (2007)
    View Run MLP2 #29 Asynchronous Prep5-TiO2 Flowthrough 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 TOM1 Huh WK, et al. (2003)
    View Data TOM1 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..746] MSA 2.005001 View MSA. No confident structure predictions are available.
    2 View Details [747..1651] deduced N/A No confident structure predictions are available.
    3 View Details [1652..1845] MSA 1.30299 View MSA. No confident structure predictions are available.
    4 View Details [1846..2170] MSA 29.460997 View MSA. No confident structure predictions are available.
    5 View Details [2171..2767] deduced N/A No confident structure predictions are available.
    6 View Details [2768..2873] PSI-BLAST 2.30103 Ubiquitin ligase NEDD4 WWIII domain
    7 View Details [2874..2951] PSI-BLAST 578.9691 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)
    8 View Details [2952..3049]
    [3105..3147]    		 PSI-BLAST 578.9691 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)
    9 View Details [3050..3104]
    [3148..3268]    		 PSI-BLAST 578.9691 Ubiquitin-protein ligase E3a, Hect catalytic domain (E6ap)

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6
    Term Confidence Notes
  • transcription regulator activity
    		•  2.86383554738706 bayes_pls_golite062009
  • binding
    		•  2.62219069341981 bayes_pls_golite062009
  • ubiquitin-protein ligase activity
    		•  2.59532734096591 bayes_pls_golite062009
  • small conjugating protein ligase activity
    		•  2.41863405676058 bayes_pls_golite062009
  • transcription activator activity
    		•  2.14675042199891 bayes_pls_golite062009
  • transcription factor binding
    		•  2.10967934447529 bayes_pls_golite062009
  • transcription cofactor activity
    		•  1.96062029508094 bayes_pls_golite062009
  • histone methyltransferase activity
    		•  1.90194027965368 bayes_pls_golite062009
  • transcription coactivator activity
    		•  1.85689339141637 bayes_pls_golite062009
  • acid-amino acid ligase activity
    		•  1.6967322982151 bayes_pls_golite062009
  • protein binding
    		•  1.46903005775608 bayes_pls_golite062009
  • protein-lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • histone-lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • lysine N-methyltransferase activity
    		•  1.14806422628668 bayes_pls_golite062009
  • protein methyltransferase activity
    		•  1.121001087082 bayes_pls_golite062009
  • ligase activity, forming carbon-nitrogen bonds
    		•  0.568363753662296 bayes_pls_golite062009
  • catalytic activity
    		•  0.210712504691113 bayes_pls_golite062009
  • histone methyltransferase activity (H3-K36 specific)
    		•  0.173723075520888 bayes_pls_golite062009
  • transcription repressor activity
    		•  0.0876845006692102 bayes_pls_golite062009
    7 No functions predicted.
    8 No functions predicted.
    9 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: 0.97

    Source: Reynolds et al. (2008)

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