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Q06625

- GDE_YEAST

UniProt

Q06625 - GDE_YEAST

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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

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
Complete GO annotation...

Keywords - Molecular functioni

Glycosidase, Glycosyltransferase, Hydrolase, Transferase

Keywords - Biological processi

Glycogen biosynthesis

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13683.
YEAST:YPR184W-MONOMER.
ReactomeiREACT_244738. Glycogen breakdown (glycogenolysis).

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-KW
Complete GO annotation...

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

Structurei

3D structure databases

ProteinModelPortaliQ06625.
SMRiQ06625. Positions 157-240.
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.
InParanoidiQ06625.
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

        10         20         30         40         50
MNRSLLLRLS DTGEPITSCS YGKGVLTLPP IPLPKDAPKD QPLYTVKLLV
60 70 80 90 100
SAGSPVARDG LVWTNCPPDH NTPFKRDKFY KKIIHSSFHE DDCIDLNVYA
110 120 130 140 150
PGSYCFYLSF RNDNEKLETT RKYYFVALPM LYINDQFLPL NSIALQSVVS
160 170 180 190 200
KWLGSDWEPI LSKIAAKNYN MVHFTPLQER GESNSPYSIY DQLQFDQEHF
210 220 230 240 250
KSPEDVKNLV EHIHRDLNML SLTDIVFNHT ANNSPWLVEH PEAGYNHITA
260 270 280 290 300
PHLISAIELD QELLNFSRNL KSWGYPTELK NIEDLFKIMD GIKVHVLGSL
310 320 330 340 350
KLWEYYAVNV QTALRDIKAH WNDESNESYS FPENIKDISS DFVKLASFVK
360 370 380 390 400
DNVTEPNFGT LGERNSNRIN VPKFIQLLKL INDGGSDDSE SSLATAQNIL
410 420 430 440 450
NEVNLPLYRE YDDDVSEILE QLFNRIKYLR LDDGGPKQGP VTVDVPLTEP
460 470 480 490 500
YFTRFKGKDG TDYALANNGW IWNGNPLVDF ASQNSRAYLR REVIVWGDCV
510 520 530 540 550
KLRYGKSPED SPYLWERMSK YIEMNAKIFD GFRIDNCHST PIHVGEYFLD
560 570 580 590 600
LARKYNPNLY VVAELFSGSE TLDCLFVERL GISSLIREAM QAWSEEELSR
610 620 630 640 650
LVHKHGGRPI GSYKFVPMDD FSYPADINLN EEHCFNDSND NSIRCVSEIM
660 670 680 690 700
IPKILTATPP HALFMDCTHD NETPFEKRTV EDTLPNAALV ALCSSAIGSV
710 720 730 740 750
YGYDEIFPHL LNLVTEKRHY DISTPTGSPS IGITKVKATL NSIRTSIGEK
760 770 780 790 800
AYDIEDSEMH VHHQGQYITF HRMDVKSGKG WYLIARMKFS DNDDPNETLP
810 820 830 840 850
PVVLNQSTCS LRFSYALERV GDEIPNDDKF IKGIPTKLKE LEGFDISYDD
860 870 880 890 900
SKKISTIKLP NEFPQGSIAI FETQQNGVDE SLDHFIRSGA LKATSSLTLE
910 920 930 940 950
SINSVLYRSE PEEYDVSAGE GGAYIIPNFG KPVYCGLQGW VSVLRKIVFY
960 970 980 990 1000
NDLAHPLSAN LRNGHWALDY TISRLNYYSD EAGINEVQNW LRSRFDRVKK
1010 1020 1030 1040 1050
LPSYLVPSYF ALIIGILYGC CRLKAIQLMS RNIGKSTLFV QSLSMTSIQM
1060 1070 1080 1090 1100
VSRMKSTSIL PGENVPSMAA GLPHFSVNYM RCWGRDVFIS LRGMLLTTGR
1110 1120 1130 1140 1150
FDEAKAHILA FAKTLKHGLI PNLLDAGRNP RYNARDAAWF FLQAVQDYVY
1160 1170 1180 1190 1200
IVPDGEKILQ EQVTRRFPLD DTYIPVDDPR AFSYSSTLEE IIYEILSRHA
1210 1220 1230 1240 1250
KGIKFREANA GPNLDRVMTD KGFNVEIHVD WSTGLIHGGS QYNCGTWMDK
1260 1270 1280 1290 1300
MGESEKAGSV GIPGTPRDGA AIEINGLLKS ALRFVIELKN KGLFKFSDVE
1310 1320 1330 1340 1350
TQDGGRIDFT EWNQLLQDNF EKRYYVPEDP SQDADYDVSA KLGVNRRGIY
1360 1370 1380 1390 1400
RDLYKSGKPY EDYQLRPNFA IAMTVAPELF VPEHAIKAIT IADEVLRGPV
1410 1420 1430 1440 1450
GMRTLDPSDY NYRPYYNNGE DSDDFATSKG RNYHQGPEWV WLYGYFLRAF
1460 1470 1480 1490 1500
HHFHFKTSPR CQNAAKEKPS SYLYQQLYYR LKGHRKWIFE SVWAGLTELT
1510 1520 1530
NKDGEVCNDS SPTQAWSSAC LLDLFYDLWD AYEDDS
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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.
SMRi Q06625. Positions 157-240.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 36356. 27 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.
InParanoidi Q06625.
KOi K01196.
OMAi PCLRPLM.
OrthoDBi EOG74J9H3.

Enzyme and pathway databases

BioCyci MetaCyc:MONOMER-13683.
YEAST:YPR184W-MONOMER.
Reactomei REACT_244738. Glycogen breakdown (glycogenolysis).

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

« Hide 'large scale' publications
  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: November 26, 2014
This is version 119 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