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Q06625 (GDE_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 116. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Glycogen debranching enzyme
Alternative name(s):
Glycogen debrancher

Including the following 2 domains:

  1. 4-alpha-glucanotransferase
    EC=2.4.1.25
    Alternative name(s):
    Oligo-1,4-1,4-glucantransferase
  2. Amylo-alpha-1,6-glucosidase
    Short name=Amylo-1,6-glucosidase
    EC=3.2.1.33
    Alternative name(s):
    Dextrin 6-alpha-D-glucosidase
Gene names
Name:GDB1
Ordered Locus Names:YPR184W
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length1536 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.4 Ref.8

Catalytic activity

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 regulation

Activity is inhibited by IGD1. Ref.8

Subunit structure

Interacts with IGD1. Ref.8

Subcellular location

Mitochondrion. Cytoplasm Ref.5.

Miscellaneous

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

Sequence similarities

Belongs to the glycogen debranching enzyme family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 15361536Glycogen debranching enzyme
PRO_0000087452

Regions

Region1 – ?4-alpha-glucanotransferase
Region? – 1536Amylo-1,6-glucosidase

Sites

Active site5351 By similarity
Active site5381 By similarity
Active site6701 By similarity

Experimental info

Sequence conflict3681R → K in BAA34996. Ref.1
Sequence conflict5361N → Y in BAA34996. Ref.1
Sequence conflict7741D → N in BAA34996. Ref.1
Sequence conflict11801R → K in BAA34996. Ref.1
Sequence conflict12891K → N in BAA34996. Ref.1
Sequence conflict14891F → S in BAA34996. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Q06625 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 167270B2EE15EDF9

FASTA1,536174,972
        10         20         30         40         50         60 
MNRSLLLRLS DTGEPITSCS YGKGVLTLPP IPLPKDAPKD QPLYTVKLLV SAGSPVARDG 

        70         80         90        100        110        120 
LVWTNCPPDH NTPFKRDKFY KKIIHSSFHE DDCIDLNVYA PGSYCFYLSF RNDNEKLETT 

       130        140        150        160        170        180 
RKYYFVALPM LYINDQFLPL NSIALQSVVS KWLGSDWEPI LSKIAAKNYN MVHFTPLQER 

       190        200        210        220        230        240 
GESNSPYSIY DQLQFDQEHF KSPEDVKNLV EHIHRDLNML SLTDIVFNHT ANNSPWLVEH 

       250        260        270        280        290        300 
PEAGYNHITA PHLISAIELD QELLNFSRNL KSWGYPTELK NIEDLFKIMD GIKVHVLGSL 

       310        320        330        340        350        360 
KLWEYYAVNV QTALRDIKAH WNDESNESYS FPENIKDISS DFVKLASFVK DNVTEPNFGT 

       370        380        390        400        410        420 
LGERNSNRIN VPKFIQLLKL INDGGSDDSE SSLATAQNIL NEVNLPLYRE YDDDVSEILE 

       430        440        450        460        470        480 
QLFNRIKYLR LDDGGPKQGP VTVDVPLTEP YFTRFKGKDG TDYALANNGW IWNGNPLVDF 

       490        500        510        520        530        540 
ASQNSRAYLR REVIVWGDCV KLRYGKSPED SPYLWERMSK YIEMNAKIFD GFRIDNCHST 

       550        560        570        580        590        600 
PIHVGEYFLD LARKYNPNLY VVAELFSGSE TLDCLFVERL GISSLIREAM QAWSEEELSR 

       610        620        630        640        650        660 
LVHKHGGRPI GSYKFVPMDD FSYPADINLN EEHCFNDSND NSIRCVSEIM IPKILTATPP 

       670        680        690        700        710        720 
HALFMDCTHD NETPFEKRTV EDTLPNAALV ALCSSAIGSV YGYDEIFPHL LNLVTEKRHY 

       730        740        750        760        770        780 
DISTPTGSPS IGITKVKATL NSIRTSIGEK AYDIEDSEMH VHHQGQYITF HRMDVKSGKG 

       790        800        810        820        830        840 
WYLIARMKFS DNDDPNETLP PVVLNQSTCS LRFSYALERV GDEIPNDDKF IKGIPTKLKE 

       850        860        870        880        890        900 
LEGFDISYDD SKKISTIKLP NEFPQGSIAI FETQQNGVDE SLDHFIRSGA LKATSSLTLE 

       910        920        930        940        950        960 
SINSVLYRSE PEEYDVSAGE GGAYIIPNFG KPVYCGLQGW VSVLRKIVFY NDLAHPLSAN 

       970        980        990       1000       1010       1020 
LRNGHWALDY TISRLNYYSD EAGINEVQNW LRSRFDRVKK LPSYLVPSYF ALIIGILYGC 

      1030       1040       1050       1060       1070       1080 
CRLKAIQLMS RNIGKSTLFV QSLSMTSIQM VSRMKSTSIL PGENVPSMAA GLPHFSVNYM 

      1090       1100       1110       1120       1130       1140 
RCWGRDVFIS LRGMLLTTGR FDEAKAHILA FAKTLKHGLI PNLLDAGRNP RYNARDAAWF 

      1150       1160       1170       1180       1190       1200 
FLQAVQDYVY IVPDGEKILQ EQVTRRFPLD DTYIPVDDPR AFSYSSTLEE IIYEILSRHA 

      1210       1220       1230       1240       1250       1260 
KGIKFREANA GPNLDRVMTD KGFNVEIHVD WSTGLIHGGS QYNCGTWMDK MGESEKAGSV 

      1270       1280       1290       1300       1310       1320 
GIPGTPRDGA AIEINGLLKS ALRFVIELKN KGLFKFSDVE TQDGGRIDFT EWNQLLQDNF 

      1330       1340       1350       1360       1370       1380 
EKRYYVPEDP SQDADYDVSA KLGVNRRGIY RDLYKSGKPY EDYQLRPNFA IAMTVAPELF 

      1390       1400       1410       1420       1430       1440 
VPEHAIKAIT IADEVLRGPV GMRTLDPSDY NYRPYYNNGE DSDDFATSKG RNYHQGPEWV 

      1450       1460       1470       1480       1490       1500 
WLYGYFLRAF HHFHFKTSPR CQNAAKEKPS SYLYQQLYYR LKGHRKWIFE SVWAGLTELT 

      1510       1520       1530 
NKDGEVCNDS SPTQAWSSAC LLDLFYDLWD AYEDDS 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
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]"Global analysis of protein localization in budding yeast."
Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K.
Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[6]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB018078 Genomic DNA. Translation: BAA34996.1.
U25842 Genomic DNA. Translation: AAB68117.1.
BK006949 Genomic DNA. Translation: DAA11600.1.
PIRS59841.
RefSeqNP_015510.1. NM_001184281.1.

3D structure databases

ProteinModelPortalQ06625.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid36356. 26 interactions.
DIPDIP-2578N.
IntActQ06625. 6 interactions.
MINTMINT-532857.
STRING4932.YPR184W.

Protein family/group databases

CAZyGH13. Glycoside Hydrolase Family 13.

Proteomic databases

MaxQBQ06625.
PaxDbQ06625.
PeptideAtlasQ06625.
PRIDEQ06625.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYPR184W; YPR184W; YPR184W.
GeneID856314.
KEGGsce:YPR184W.

Organism-specific databases

CYGDYPR184w.
SGDS000006388. GDB1.

Phylogenomic databases

eggNOGCOG3408.
GeneTreeENSGT00390000012596.
HOGENOMHOG000212981.
KOK01196.
OMAPCLRPLM.
OrthoDBEOG74J9H3.

Enzyme and pathway databases

BioCycMetaCyc:MONOMER-13683.
YEAST:YPR184W-MONOMER.

Gene expression databases

GenevestigatorQ06625.

Family and domain databases

Gene3D3.20.20.80. 3 hits.
InterProIPR008928. 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]
PANTHERPTHR10569. PTHR10569. 1 hit.
PfamPF06202. GDE_C. 1 hit.
PF14699. hGDE_N. 1 hit.
[Graphical view]
SUPFAMSSF48208. SSF48208. 2 hits.
SSF51445. SSF51445. 3 hits.
TIGRFAMsTIGR01531. glyc_debranch. 1 hit.
ProtoNetSearch...

Other

NextBio981694.
PROQ06625.

Entry information

Entry nameGDE_YEAST
AccessionPrimary (citable) accession number: Q06625
Secondary accession number(s): D6W4I4, O93808
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: November 1, 1996
Last modified: June 11, 2014
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome XVI

Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families