Structure of PDB 3wem Chain A Binding Site BS02

Receptor Information
>3wem Chain A (length=830) Species: 161934 (Beta vulgaris) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AIGYGYQVKNAKVDNSTGKSLTALLQLIRNSPVYGPDIQFLSFTASFEED
DTLRIRITDANNRRWEIPNEVLPRPPPPPSPPPQPTTTVLSHPHSDLVFT
LFHTTPFGFTIYRKSTHDVLFDATPIPSNPTTFLIYKDQYLQLSSSLPAQ
QAHLYGLGEHTKPTFQLAHNQILTLWNADIASFNRDLNLYGSHPFYMDVR
SSPMVGSTHGVFLLNSNGMDVEYTGDRITYKVIGGIIDLYIFAGRTPEMV
LDQYTKLIGRPAPMPYWAFGFHQCRWGYRDVNEIETVVDKYAEARIPLEV
MWTDIDYMDAFKDFTLDPVHFPLDKMQQFVTKLHRNGQRYVPILDPGINT
NKSYGTFIRGMQSNVFIKRDGNPYLGSVWPGPVYYPDFLDPAARSFWVDE
IKRFRDILPIDGIWIDMNEASNFITSAPTPGSTLDNPPYKINNSGGRVPI
NSKTIPATAMHYGNVTEYNAHNLYGFLESQATREALVRTSNERPFLLSRS
TFAGSGKYTAHWTGDNAARWDDLQYSIPTMLNFGLFGMPMIGADICGFAE
STTEELCRRWIQLGAFYPFSRDHSARDTTHQELYLWESVAASARTVLGLR
YQLLPYYYTLMYDANLRGIPIARPLFFTFPDDVATYGISSQFLIGRGIMV
SPVLQPGAVSVNAYFPRGNWFSLFNYTSSVSVSAGTYVSLSAPPDHINVH
IHEGNIVAMQGEAMTTQAARSTPFHLLVVMSDHVASTGELFLDNGIEMDI
GGPGGKWTLVRFFAESGINNLTISSEVVNRGYAMSQRWVMDKITILGLKR
RVRIKGFVVSVISDLRQLVGQAFKLELEFE
Ligand information
Ligand IDAC1
InChIInChI=1S/C13H23NO8/c1-4-7(10(18)12(20)13(21)22-4)14-6-2-5(3-15)8(16)11(19)9(6)17/h2,4,6-21H,3H2,1H3/t4-,6+,7-,8-,9+,10+,11+,12-,13+/m1/s1
InChIKeyRBZIIHWPZWOIDU-ZCGMLSCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC1C(C(C(C(O1)O)O)O)NC2C=C(C(C(C2O)O)O)CO
CACTVS 3.341C[CH]1O[CH](O)[CH](O)[CH](O)[CH]1N[CH]2C=C(CO)[CH](O)[CH](O)[CH]2O
OpenEye OEToolkits 1.5.0C[C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O)O)O)N[C@H]2C=C([C@H]([C@@H]([C@H]2O)O)O)CO
ACDLabs 10.04OC2C(NC1C=C(CO)C(O)C(O)C1O)C(OC(O)C2O)C
CACTVS 3.341C[C@H]1O[C@H](O)[C@H](O)[C@@H](O)[C@@H]1N[C@H]2C=C(CO)[C@@H](O)[C@H](O)[C@H]2O
FormulaC13 H23 N O8
Name4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose;
6-METHYL-5-(4,5,6-TRIHYDROXY-3-HYDROXYMETHYL-CYCLOHEX-2-ENYLAMINO)-TETRAHYDRO-PYRAN-2,3,4-TRIOL;
4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucose;
4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-D-glucose;
4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-glucose
ChEMBL
DrugBankDB02218
ZINCZINC000058638973
PDB chain3wem Chain C Residue 5 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB3wem Structural advantage of sugar beet alpha-glucosidase to stabilize the Michaelis complex with long-chain substrate
Resolution2.591 Å
Binding residue
(original residue number in PDB)
D232 D357 I358 D469 R552 D568 F601 H626
Binding residue
(residue number reindexed from 1)
D179 D304 I305 D416 R499 D515 F548 H573
Annotation score1
Enzymatic activity
Enzyme Commision number 3.2.1.20: alpha-glucosidase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0030246 carbohydrate binding
Biological Process
GO:0005975 carbohydrate metabolic process

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:3wem, PDBe:3wem, PDBj:3wem
PDBsum3wem
PubMed25451917
UniProtL0N7E5

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