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Protein Overview: GDB1

General Information:
Name(s) found: GDB1 / YPR184W [SGD]
Description(s) found:
Found 25 descriptions.
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  • Glycogen debranching enzyme containing glucanotranferase and alpha-1,6-amyloglucosidase activities, required for glycogen degradation; phosphorylated in mitochondria [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1536 amino acids

    Gene Ontology:
    Cellular Component: cytoplasm [IDALink to PubMed article]
    mitochondrion [IDALink to PubMed articleLink to PubMed article]
    Biological Process: glycogen catabolic process [IMPLink to PubMed article]
    Molecular Function: amylo-alpha-1,6-glucosidase activity [IDALink to PubMed article][IMPLink to PubMed article][ISSLink to PubMed article]
    4-alpha-glucanotransferase activity [IDALink to PubMed article][IMPLink to PubMed article][ISSLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNRSLLLRLS DTGEPITSCS YGKGVLTLPP IPLPKDAPKD QPLYTVKLLV SAGSPVARDG  60
   61 LVWTNCPPDH NTPFKRDKFY KKIIHSSFHE DDCIDLNVYA PGSYCFYLSF RNDNEKLETT 120
  121 RKYYFVALPM LYINDQFLPL NSIALQSVVS KWLGSDWEPI LSKIAAKNYN MVHFTPLQER 180
  181 GESNSPYSIY DQLQFDQEHF KSPEDVKNLV EHIHRDLNML SLTDIVFNHT ANNSPWLVEH 240
  241 PEAGYNHITA PHLISAIELD QELLNFSRNL KSWGYPTELK NIEDLFKIMD GIKVHVLGSL 300
  301 KLWEYYAVNV QTALRDIKAH WNDESNESYS FPENIKDISS DFVKLASFVK DNVTEPNFGT 360
  361 LGERNSNRIN VPKFIQLLKL INDGGSDDSE SSLATAQNIL NEVNLPLYRE YDDDVSEILE 420
  421 QLFNRIKYLR LDDGGPKQGP VTVDVPLTEP YFTRFKGKDG TDYALANNGW IWNGNPLVDF 480
  481 ASQNSRAYLR REVIVWGDCV KLRYGKSPED SPYLWERMSK YIEMNAKIFD GFRIDNCHST 540
  541 PIHVGEYFLD LARKYNPNLY VVAELFSGSE TLDCLFVERL GISSLIREAM QAWSEEELSR 600
  601 LVHKHGGRPI GSYKFVPMDD FSYPADINLN EEHCFNDSND NSIRCVSEIM IPKILTATPP 660
  661 HALFMDCTHD NETPFEKRTV EDTLPNAALV ALCSSAIGSV YGYDEIFPHL LNLVTEKRHY 720
  721 DISTPTGSPS IGITKVKATL NSIRTSIGEK AYDIEDSEMH VHHQGQYITF HRMDVKSGKG 780
  781 WYLIARMKFS DNDDPNETLP PVVLNQSTCS LRFSYALERV GDEIPNDDKF IKGIPTKLKE 840
  841 LEGFDISYDD SKKISTIKLP NEFPQGSIAI FETQQNGVDE SLDHFIRSGA LKATSSLTLE 900
  901 SINSVLYRSE PEEYDVSAGE GGAYIIPNFG KPVYCGLQGW VSVLRKIVFY NDLAHPLSAN 960
  961 LRNGHWALDY TISRLNYYSD EAGINEVQNW LRSRFDRVKK LPSYLVPSYF ALIIGILYGC1020
 1021 CRLKAIQLMS RNIGKSTLFV QSLSMTSIQM VSRMKSTSIL PGENVPSMAA GLPHFSVNYM1080
 1081 RCWGRDVFIS LRGMLLTTGR FDEAKAHILA FAKTLKHGLI PNLLDAGRNP RYNARDAAWF1140
 1141 FLQAVQDYVY IVPDGEKILQ EQVTRRFPLD DTYIPVDDPR AFSYSSTLEE IIYEILSRHA1200
 1201 KGIKFREANA GPNLDRVMTD KGFNVEIHVD WSTGLIHGGS QYNCGTWMDK MGESEKAGSV1260
 1261 GIPGTPRDGA AIEINGLLKS ALRFVIELKN KGLFKFSDVE TQDGGRIDFT EWNQLLQDNF1320
 1321 EKRYYVPEDP SQDADYDVSA KLGVNRRGIY RDLYKSGKPY EDYQLRPNFA IAMTVAPELF1380
 1381 VPEHAIKAIT IADEVLRGPV GMRTLDPSDY NYRPYYNNGE DSDDFATSKG RNYHQGPEWV1440
 1441 WLYGYFLRAF HHFHFKTSPR CQNAAKEKPS SYLYQQLYYR LKGHRKWIFE SVWAGLTELT1500
 1501 NKDGEVCNDS SPTQAWSSAC LLDLFYDLWD AYEDDS

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Krogan NJ, et al. (2006) CPR3 GDB1 YFR017C
    View Details Gavin AC, et al. (2006) GDB1 MIR1 NUP192
    View Details Ho Y, et al. (2002) AHP1 CDC39 DCS1 DCS2 GDB1 GIP2 GLC7 GPH1 GSY2 MDH1 RAD50 TSA2 UBP15 UBR1 VPS1 YAK1 YLR241W YPL247C

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run MLP2 #03 Alpha Factor Prep1-TiO2 Flowthrough Keck JM, et al. (2011)
    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:

    SHOWING SINGLE HITS. [ Hide Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

      BAIT PREY HITS PUBLICATION
    View Screen SMT3 GDB1 1 Unpublished Fields Lab Data
    View Screen UBP6 GDB1 1 Unpublished Fields Lab Data
    View Screen CIA1 GDB1 1 Hazbun TR, et al. (2003)

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data GDB1 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..110] PSI-BLAST 87.522879 Neopullulanase, central domain; Neopullulanase
    2 View Details [111..444] PSI-BLAST 87.522879 Neopullulanase, central domain; Neopullulanase
    3 View Details [445..539] deduced N/A No confident structure predictions are available.
    4 View Details [540..812] MSA 1.009911 View MSA. No confident structure predictions are available.
    5 View Details [813..927] deduced N/A No confident structure predictions are available.
    6 View Details [928..1536] MSA 31.092941 View MSA. No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • hydrolase activity, hydrolyzing O-glycosyl compounds
    		•  4.55801959095491 bayes_pls_golite062009
  • hydrolase activity, acting on glycosyl bonds
    		•  4.29108420555514 bayes_pls_golite062009
  • hydrolase activity
    		•  3.3484406095165 bayes_pls_golite062009
  • glucosidase activity
    		•  1.92306554001182 bayes_pls_golite062009
  • catalytic activity
    		•  1.85569074294201 bayes_pls_golite062009
  • cation transmembrane transporter activity
    		•  1.69105818607475 bayes_pls_golite062009
  • alpha-amylase activity
    		•  1.42264105957213 bayes_pls_golite062009
  • ion transmembrane transporter activity
    		•  1.39709424453076 bayes_pls_golite062009
  • amylase activity
    		•  1.37652764526134 bayes_pls_golite062009
  • ligand-gated ion channel activity
    		•  1.05409109078129 bayes_pls_golite062009
  • ligand-gated channel activity
    		•  1.05409109078129 bayes_pls_golite062009
  • cation channel activity
    		•  1.05200514582216 bayes_pls_golite062009
  • gated channel activity
    		•  0.9985637228196 bayes_pls_golite062009
  • phosphorylase activity
    		•  0.99159540154441 bayes_pls_golite062009
  • ion channel activity
    		•  0.90214915215542 bayes_pls_golite062009
  • oxidoreductase activity
    		•  0.88505980389015 bayes_pls_golite062009
  • hexosaminidase activity
    		•  0.763360027922833 bayes_pls_golite062009
  • substrate-specific channel activity
    		•  0.7468694373149 bayes_pls_golite062009
  • channel activity
    		•  0.72022399139884 bayes_pls_golite062009
  • passive transmembrane transporter activity
    		•  0.72022399139884 bayes_pls_golite062009
  • carbohydrate binding
    		•  0.66542913126194 bayes_pls_golite062009
  • binding
    		•  0.63693798355947 bayes_pls_golite062009
  • voltage-gated cation channel activity
    		•  0.607543065522144 bayes_pls_golite062009
  • sugar binding
    		•  0.52048704356718 bayes_pls_golite062009
  • alpha-glucosidase activity
    		•  0.502835520523619 bayes_pls_golite062009
  • chitinase activity
    		•  0.500233744020165 bayes_pls_golite062009
  • voltage-gated channel activity
    		•  0.469037239588056 bayes_pls_golite062009
  • voltage-gated ion channel activity
    		•  0.432338683948607 bayes_pls_golite062009
  • transferase activity, transferring hexosyl groups
    		•  0.266938437560648 bayes_pls_golite062009
  • beta-N-acetylhexosaminidase activity
    		•  0.263065978664289 bayes_pls_golite062009
    2 No functions predicted.
    3
    Term Confidence Notes
  • hydrolase activity, hydrolyzing O-glycosyl compounds
    		•  4.01411696184454 bayes_pls_golite062009
  • hydrolase activity, acting on glycosyl bonds
    		•  3.75569329586306 bayes_pls_golite062009
  • hydrolase activity
    		•  3.09437610147873 bayes_pls_golite062009
  • catalytic activity
    		•  1.71182498300466 bayes_pls_golite062009
  • cation transmembrane transporter activity
    		•  1.47858966054862 bayes_pls_golite062009
  • glucosidase activity
    		•  1.43091142767978 bayes_pls_golite062009
  • ion transmembrane transporter activity
    		•  1.20132615047656 bayes_pls_golite062009
  • alpha-amylase activity
    		•  0.941347702703202 bayes_pls_golite062009
  • oxidoreductase activity
    		•  0.903068069820964 bayes_pls_golite062009
  • amylase activity
    		•  0.891520642245226 bayes_pls_golite062009
  • phosphorylase activity
    		•  0.800923094114415 bayes_pls_golite062009
  • binding
    		•  0.714691332987919 bayes_pls_golite062009
  • cation channel activity
    		•  0.687664373378757 bayes_pls_golite062009
  • ligand-gated ion channel activity
    		•  0.644476237009351 bayes_pls_golite062009
  • ligand-gated channel activity
    		•  0.644476237009351 bayes_pls_golite062009
  • gated channel activity
    		•  0.639690382658596 bayes_pls_golite062009
  • ion channel activity
    		•  0.554120053171305 bayes_pls_golite062009
  • carbohydrate binding
    		•  0.504948074246922 bayes_pls_golite062009
  • substrate-specific channel activity
    		•  0.41159587344266 bayes_pls_golite062009
  • channel activity
    		•  0.389778821252571 bayes_pls_golite062009
  • passive transmembrane transporter activity
    		•  0.389778821252571 bayes_pls_golite062009
  • sugar binding
    		•  0.358568008635262 bayes_pls_golite062009
  • hexosaminidase activity
    		•  0.276754066333854 bayes_pls_golite062009
  • voltage-gated cation channel activity
    		•  0.161734714032652 bayes_pls_golite062009
  • chitinase activity
    		•  0.0470563383739831 bayes_pls_golite062009
  • transferase activity, transferring hexosyl groups
    		•  0.0442793643840943 bayes_pls_golite062009
  • voltage-gated channel activity
    		•  0.0360180230561171 bayes_pls_golite062009
  • alpha-glucosidase activity
    		•  0.0243149684125608 bayes_pls_golite062009
    4 No functions predicted.
    5
    Term Confidence Notes
  • hydrolase activity, hydrolyzing O-glycosyl compounds
    		•  3.49882811932206 bayes_pls_golite062009
  • hydrolase activity, acting on glycosyl bonds
    		•  3.13521240810366 bayes_pls_golite062009
  • hydrolase activity
    		•  2.32639760387397 bayes_pls_golite062009
  • trehalase activity
    		•  1.57673904073206 bayes_pls_golite062009
  • catalytic activity
    		•  1.16285856935495 bayes_pls_golite062009
  • binding
    		•  1.09827656713171 bayes_pls_golite062009
  • alpha,alpha-trehalase activity
    		•  0.711518852337884 bayes_pls_golite062009
  • phosphorylase activity
    		•  0.60780059000187 bayes_pls_golite062009
  • protein binding
    		•  0.31260719357226 bayes_pls_golite062009
  • intramolecular oxidoreductase activity
    		•  0.0683547784833305 bayes_pls_golite062009
    6 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: 0.60

    Source: Reynolds et al. (2008)

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