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Q06625

- GDE_YEAST

UniProt

Q06625 - GDE_YEAST

Protein

Glycogen debranching enzyme

Gene

GDB1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 117 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Multifunctional enzyme acting as 1,4-alpha-D-glucan:1,4-alpha-D-glucan 4-alpha-D-glycosyltransferase and amylo-1,6-glucosidase in glycogen degradation.2 Publications

    Catalytic activityi

    Transfers a segment of a (1->4)-alpha-D-glucan to a new position in an acceptor, which may be glucose or a (1->4)-alpha-D-glucan.
    Hydrolysis of (1->6)-alpha-D-glucosidic branch linkages in glycogen phosphorylase limit dextrin.

    Enzyme regulationi

    Activity is inhibited by IGD1.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei535 – 5351By similarity
    Active sitei538 – 5381By similarity
    Active sitei670 – 6701By similarity

    GO - Molecular functioni

    1. 4-alpha-glucanotransferase activity Source: SGD
    2. amylo-alpha-1,6-glucosidase activity Source: SGD

    GO - Biological processi

    1. glycogen biosynthetic process Source: UniProtKB-KW
    2. glycogen catabolic process Source: SGD

    Keywords - Molecular functioni

    Glycosidase, Glycosyltransferase, Hydrolase, Transferase

    Keywords - Biological processi

    Glycogen biosynthesis

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-13683.
    YEAST:YPR184W-MONOMER.

    Protein family/group databases

    CAZyiGH13. Glycoside Hydrolase Family 13.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glycogen debranching enzyme
    Alternative name(s):
    Glycogen debrancher
    Including the following 2 domains:
    4-alpha-glucanotransferase (EC:2.4.1.25)
    Alternative name(s):
    Oligo-1,4-1,4-glucantransferase
    Amylo-alpha-1,6-glucosidase (EC:3.2.1.33)
    Short name:
    Amylo-1,6-glucosidase
    Alternative name(s):
    Dextrin 6-alpha-D-glucosidase
    Gene namesi
    Name:GDB1
    Ordered Locus Names:YPR184W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XVI

    Organism-specific databases

    CYGDiYPR184w.
    SGDiS000006388. GDB1.

    Subcellular locationi

    Mitochondrion 1 Publication. Cytoplasm 1 Publication

    GO - Cellular componenti

    1. mitochondrion Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm, Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 15361536Glycogen debranching enzymePRO_0000087452Add
    BLAST

    Proteomic databases

    MaxQBiQ06625.
    PaxDbiQ06625.
    PeptideAtlasiQ06625.
    PRIDEiQ06625.

    Expressioni

    Gene expression databases

    GenevestigatoriQ06625.

    Interactioni

    Subunit structurei

    Interacts with IGD1.1 Publication

    Protein-protein interaction databases

    BioGridi36356. 26 interactions.
    DIPiDIP-2578N.
    IntActiQ06625. 6 interactions.
    MINTiMINT-532857.
    STRINGi4932.YPR184W.

    Structurei

    3D structure databases

    ProteinModelPortaliQ06625.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni? – 1536Amylo-1,6-glucosidase
    Regioni1 – ?4-alpha-glucanotransferase

    Sequence similaritiesi

    Belongs to the glycogen debranching enzyme family.Curated

    Phylogenomic databases

    eggNOGiCOG3408.
    GeneTreeiENSGT00390000012596.
    HOGENOMiHOG000212981.
    KOiK01196.
    OMAiPCLRPLM.
    OrthoDBiEOG74J9H3.

    Family and domain databases

    Gene3Di3.20.20.80. 3 hits.
    InterProiIPR008928. 6-hairpin_glycosidase-like.
    IPR010401. AGL/Gdb1.
    IPR029436. AGL_euk_N.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR006421. Glycogen_debranch_met.
    IPR017853. Glycoside_hydrolase_SF.
    [Graphical view]
    PANTHERiPTHR10569. PTHR10569. 1 hit.
    PfamiPF06202. GDE_C. 1 hit.
    PF14699. hGDE_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF48208. SSF48208. 2 hits.
    SSF51445. SSF51445. 3 hits.
    TIGRFAMsiTIGR01531. glyc_debranch. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q06625-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNRSLLLRLS DTGEPITSCS YGKGVLTLPP IPLPKDAPKD QPLYTVKLLV     50
    SAGSPVARDG LVWTNCPPDH NTPFKRDKFY KKIIHSSFHE DDCIDLNVYA 100
    PGSYCFYLSF RNDNEKLETT RKYYFVALPM LYINDQFLPL NSIALQSVVS 150
    KWLGSDWEPI LSKIAAKNYN MVHFTPLQER GESNSPYSIY DQLQFDQEHF 200
    KSPEDVKNLV EHIHRDLNML SLTDIVFNHT ANNSPWLVEH PEAGYNHITA 250
    PHLISAIELD QELLNFSRNL KSWGYPTELK NIEDLFKIMD GIKVHVLGSL 300
    KLWEYYAVNV QTALRDIKAH WNDESNESYS FPENIKDISS DFVKLASFVK 350
    DNVTEPNFGT LGERNSNRIN VPKFIQLLKL INDGGSDDSE SSLATAQNIL 400
    NEVNLPLYRE YDDDVSEILE QLFNRIKYLR LDDGGPKQGP VTVDVPLTEP 450
    YFTRFKGKDG TDYALANNGW IWNGNPLVDF ASQNSRAYLR REVIVWGDCV 500
    KLRYGKSPED SPYLWERMSK YIEMNAKIFD GFRIDNCHST PIHVGEYFLD 550
    LARKYNPNLY VVAELFSGSE TLDCLFVERL GISSLIREAM QAWSEEELSR 600
    LVHKHGGRPI GSYKFVPMDD FSYPADINLN EEHCFNDSND NSIRCVSEIM 650
    IPKILTATPP HALFMDCTHD NETPFEKRTV EDTLPNAALV ALCSSAIGSV 700
    YGYDEIFPHL LNLVTEKRHY DISTPTGSPS IGITKVKATL NSIRTSIGEK 750
    AYDIEDSEMH VHHQGQYITF HRMDVKSGKG WYLIARMKFS DNDDPNETLP 800
    PVVLNQSTCS LRFSYALERV GDEIPNDDKF IKGIPTKLKE LEGFDISYDD 850
    SKKISTIKLP NEFPQGSIAI FETQQNGVDE SLDHFIRSGA LKATSSLTLE 900
    SINSVLYRSE PEEYDVSAGE GGAYIIPNFG KPVYCGLQGW VSVLRKIVFY 950
    NDLAHPLSAN LRNGHWALDY TISRLNYYSD EAGINEVQNW LRSRFDRVKK 1000
    LPSYLVPSYF ALIIGILYGC CRLKAIQLMS RNIGKSTLFV QSLSMTSIQM 1050
    VSRMKSTSIL PGENVPSMAA GLPHFSVNYM RCWGRDVFIS LRGMLLTTGR 1100
    FDEAKAHILA FAKTLKHGLI PNLLDAGRNP RYNARDAAWF FLQAVQDYVY 1150
    IVPDGEKILQ EQVTRRFPLD DTYIPVDDPR AFSYSSTLEE IIYEILSRHA 1200
    KGIKFREANA GPNLDRVMTD KGFNVEIHVD WSTGLIHGGS QYNCGTWMDK 1250
    MGESEKAGSV GIPGTPRDGA AIEINGLLKS ALRFVIELKN KGLFKFSDVE 1300
    TQDGGRIDFT EWNQLLQDNF EKRYYVPEDP SQDADYDVSA KLGVNRRGIY 1350
    RDLYKSGKPY EDYQLRPNFA IAMTVAPELF VPEHAIKAIT IADEVLRGPV 1400
    GMRTLDPSDY NYRPYYNNGE DSDDFATSKG RNYHQGPEWV WLYGYFLRAF 1450
    HHFHFKTSPR CQNAAKEKPS SYLYQQLYYR LKGHRKWIFE SVWAGLTELT 1500
    NKDGEVCNDS SPTQAWSSAC LLDLFYDLWD AYEDDS 1536
    Length:1,536
    Mass (Da):174,972
    Last modified:November 1, 1996 - v1
    Checksum:i167270B2EE15EDF9
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti368 – 3681R → K in BAA34996. (PubMed:10873545)Curated
    Sequence conflicti536 – 5361N → Y in BAA34996. (PubMed:10873545)Curated
    Sequence conflicti774 – 7741D → N in BAA34996. (PubMed:10873545)Curated
    Sequence conflicti1180 – 11801R → K in BAA34996. (PubMed:10873545)Curated
    Sequence conflicti1289 – 12891K → N in BAA34996. (PubMed:10873545)Curated
    Sequence conflicti1489 – 14891F → S in BAA34996. (PubMed:10873545)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB018078 Genomic DNA. Translation: BAA34996.1.
    U25842 Genomic DNA. Translation: AAB68117.1.
    BK006949 Genomic DNA. Translation: DAA11600.1.
    PIRiS59841.
    RefSeqiNP_015510.1. NM_001184281.1.

    Genome annotation databases

    EnsemblFungiiYPR184W; YPR184W; YPR184W.
    GeneIDi856314.
    KEGGisce:YPR184W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB018078 Genomic DNA. Translation: BAA34996.1 .
    U25842 Genomic DNA. Translation: AAB68117.1 .
    BK006949 Genomic DNA. Translation: DAA11600.1 .
    PIRi S59841.
    RefSeqi NP_015510.1. NM_001184281.1.

    3D structure databases

    ProteinModelPortali Q06625.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36356. 26 interactions.
    DIPi DIP-2578N.
    IntActi Q06625. 6 interactions.
    MINTi MINT-532857.
    STRINGi 4932.YPR184W.

    Protein family/group databases

    CAZyi GH13. Glycoside Hydrolase Family 13.

    Proteomic databases

    MaxQBi Q06625.
    PaxDbi Q06625.
    PeptideAtlasi Q06625.
    PRIDEi Q06625.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YPR184W ; YPR184W ; YPR184W .
    GeneIDi 856314.
    KEGGi sce:YPR184W.

    Organism-specific databases

    CYGDi YPR184w.
    SGDi S000006388. GDB1.

    Phylogenomic databases

    eggNOGi COG3408.
    GeneTreei ENSGT00390000012596.
    HOGENOMi HOG000212981.
    KOi K01196.
    OMAi PCLRPLM.
    OrthoDBi EOG74J9H3.

    Enzyme and pathway databases

    BioCyci MetaCyc:MONOMER-13683.
    YEAST:YPR184W-MONOMER.

    Miscellaneous databases

    NextBioi 981694.
    PROi Q06625.

    Gene expression databases

    Genevestigatori Q06625.

    Family and domain databases

    Gene3Di 3.20.20.80. 3 hits.
    InterProi IPR008928. 6-hairpin_glycosidase-like.
    IPR010401. AGL/Gdb1.
    IPR029436. AGL_euk_N.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR006421. Glycogen_debranch_met.
    IPR017853. Glycoside_hydrolase_SF.
    [Graphical view ]
    PANTHERi PTHR10569. PTHR10569. 1 hit.
    Pfami PF06202. GDE_C. 1 hit.
    PF14699. hGDE_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF48208. SSF48208. 2 hits.
    SSF51445. SSF51445. 3 hits.
    TIGRFAMsi TIGR01531. glyc_debranch. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "High expression of glycogen-debranching enzyme in Escherichia coli and its competent purification method."
      Nakayama A., Yamamoto K., Tabata S.
      Protein Expr. Purif. 19:298-303(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 208-216; 302-311; 351-358; 1296-1305 AND 1356-1365.
      Strain: ATCC 56960 / D-346.
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI."
      Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M.
      , Coster F., Davis K., Davis R.W., Dietrich F.S., Delius H., DiPaolo T., Dubois E., Duesterhoeft A., Duncan M., Floeth M., Fortin N., Friesen J.D., Fritz C., Goffeau A., Hall J., Hebling U., Heumann K., Hilbert H., Hillier L.W., Hunicke-Smith S., Hyman R.W., Johnston M., Kalman S., Kleine K., Komp C., Kurdi O., Lashkari D., Lew H., Lin A., Lin D., Louis E.J., Marathe R., Messenguy F., Mewes H.-W., Mirtipati S., Moestl D., Mueller-Auer S., Namath A., Nentwich U., Oefner P., Pearson D., Petel F.X., Pohl T.M., Purnelle B., Rajandream M.A., Rechmann S., Rieger M., Riles L., Roberts D., Schaefer M., Scharfe M., Scherens B., Schramm S., Schroeder M., Sdicu A.-M., Tettelin H., Urrestarazu L.A., Ushinsky S., Vierendeels F., Vissers S., Voss H., Walsh S.V., Wambutt R., Wang Y., Wedler E., Wedler H., Winnett E., Zhong W.-W., Zollner A., Vo D.H., Hani J.
      Nature 387:103-105(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. "The Saccharomyces cerevisiae YPR184w gene encodes the glycogen debranching enzyme."
      Teste M.A., Enjalbert B., Parrou J.L., Francois J.M.
      FEMS Microbiol. Lett. 193:105-110(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    7. "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase."
      Reinders J., Wagner K., Zahedi R.P., Stojanovski D., Eyrich B., van der Laan M., Rehling P., Sickmann A., Pfanner N., Meisinger C.
      Mol. Cell. Proteomics 6:1896-1906(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Strain: ATCC 76625 / YPH499.
    8. "The Saccharomyces cerevisiae fermentation stress response protein Igd1p/Yfr017p regulates glycogen levels by inhibiting the glycogen debranching enzyme."
      Walkey C.J., Luo Z., Borchers C.H., Measday V., van Vuuren H.J.
      FEMS Yeast Res. 11:499-508(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH IGD1, ENZYME REGULATION, FUNCTION.

    Entry informationi

    Entry nameiGDE_YEAST
    AccessioniPrimary (citable) accession number: Q06625
    Secondary accession number(s): D6W4I4, O93808
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 2005
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 117 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 125 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Multifunctional enzyme, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome XVI
      Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

    External Data

    Dasty 3