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Protein Overview: CDC9

General Information:
Name(s) found: CDC9 / YDL164C [SGD]
Description(s) found:
Found 30 descriptions.
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  • DNA ligase found in the nucleus and mitochondria, an essential enzyme that joins Okazaki fragments during DNA replication; also acts in nucleotide excision repair, base excision repair, and recombination [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 755 amino acids

    Gene Ontology:
    Cellular Component: replication fork [NASLink to PubMed article]
    nucleus [IDALink to PubMed article]
    mitochondrion [IDALink to PubMed article][IMPLink to PubMed article]
    Biological Process: lagging strand elongation [IDALink to PubMed article][IMPLink to PubMed article]
    base-excision repair [IMPLink to PubMed article]
    DNA ligation [IDALink to PubMed article][IMPLink to PubMed article]
    DNA recombination [IMPLink to PubMed article]
    nucleotide-excision repair [IMPLink to PubMed article]
    Molecular Function: DNA ligase (ATP) activity [IDALink to PubMed articleLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRRLLTGCLL SSARPLKSRL PLLMSSSLPS SAGKKPKQAT LARFFTSMKN KPTEGTPSPK  60
   61 KSSKHMLEDR MDNVSGEEEY ATKKLKQTAV THTVAAPSSM GSNFSSIPSS APSSGVADSP 120
  121 QQSQRLVGEV EDALSSNNND HYSSNIPYSE VCEVFNKIEA ISSRLEIIRI CSDFFIKIMK 180
  181 QSSKNLIPTT YLFINRLGPD YEAGLELGLG ENLLMKTISE TCGKSMSQIK LKYKDIGDLG 240
  241 EIAMGARNVQ PTMFKPKPLT VGEVFKNLRA IAKTQGKDSQ LKKMKLIKRM LTACKGIEAK 300
  301 FLIRSLESKL RIGLAEKTVL ISLSKALLLH DENREDSPDK DVPMDVLESA QQKIRDAFCQ 360
  361 VPNYEIVINS CLEHGIMNLD KYCTLRPGIP LKPMLAKPTK AINEVLDRFQ GETFTSEYKY 420
  421 DGERAQVHLL NDGTMRIYSR NGENMTERYP EINITDFIQD LDTTKNLILD CEAVAWDKDQ 480
  481 GKILPFQVLS TRKRKDVELN DVKVKVCLFA FDILCYNDER LINKSLKERR EYLTKVTKVV 540
  541 PGEFQYATQI TTNNLDELQK FLDESVNHSC EGLMVKMLEG PESHYEPSKR SRNWLKLKKD 600
  601 YLEGVGDSLD LCVLGAYYGR GKRTGTYGGF LLGCYNQDTG EFETCCKIGT GFSDEMLQLL 660
  661 HDRLTPTIID GPKATFVFDS SAEPDVWFEP TTLFEVLTAD LSLSPIYKAG SATFDKGVSL 720
  721 RFPRFLRIRE DKGVEDATSS DQIVELYENQ SHMQN

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Krogan NJ, et al. (2006) CAK1 CDC34 CDC53 CDC9 CRT10 GRR1 MEP3 MET30 MMS1 POR1 RTT101 SAF1
    View Details Ho Y, et al. (2002) CDC9 DBP9 ECM10 POL30 YOR378W
    View Details Qiu et al. (2008) CDC9 DPB2 POL3 POL31 POL32

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run PAN1 No Comments Toshima J, et al (2006)
    View Run RLF2 phosphorylation data - cascade search Green EM, et al (2005)
    View Run MLP2 #19 Asynchronous Prep1-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #19b Asynchronous Prep1-new search criteria Keck JM, et al. (2011)
    View Run MLP2 #19a Asynchronous Prep1-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 CDC9 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..143] ORFEUS 7.99 No description for 1ldvA was found.
    2 View Details [144..330] ORFEUS 7.17 Lipovitellin-phosvitin complex, superhelical domain; Lipovitellin-phosvitin complex; beta-sheet shell regions
    3 View Details [331..391] deduced N/A No confident structure predictions are available.
    4 View Details [392..419]
    [548..599]    		 PSI-BLAST 38.30103 ATP-dependent DNA ligase; ATP-dependent DNA ligase, N-terminal domain
    5 View Details [420..547]
    [600..755]    		 PSI-BLAST 38.30103 ATP-dependent DNA ligase; ATP-dependent DNA ligase, N-terminal domain

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • DNA ligase activity
    		•  5.12640522664474 bayes_pls_golite062009
  • ligase activity, forming phosphoric ester bonds
    		•  5.0464977640909 bayes_pls_golite062009
  • DNA ligase (ATP) activity
    		•  3.18914513915107 bayes_pls_golite062009
  • DNA ligase (NAD+) activity
    		•  3.1488483282989 bayes_pls_golite062009
  • ligase activity
    		•  2.36807839237461 bayes_pls_golite062009
  • catalytic activity
    		•  2.15370807854636 bayes_pls_golite062009
  • nucleotidyltransferase activity
    		•  2.06695360101593 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.4725380374617 bayes_pls_golite062009
  • binding
    		•  1.23714137231717 bayes_pls_golite062009
  • DNA binding
    		•  1.1855473374207 bayes_pls_golite062009
  • protein binding
    		•  0.0772495917382868 bayes_pls_golite062009
    3 No functions predicted.
    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:

    [View Details]
    Source: Reynolds et al. 2008. Manuscript submitted Philius confidence legend
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