Structure of PDB 3rx7 Chain A Binding Site BS03

Receptor Information
>3rx7 Chain A (length=530) Species: 1388 (Alicyclobacillus acidocaldarius subsp. acidocaldarius) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VPKSIFYNQVGYLISGDKRFWIQAHEPQPFALRTPEGQAVFAGMTKPVGG
NWYVGDFTALRVPGTYTLTVGTLEARVVIHRRAYRDVLEAMLRFFDYQLC
GVVLPEDEAGPWAHGACHTSDAKVFGTERALACPGGWHDAGDYGKYTVPA
AKAVADLLLAHEYFPAALAHVRPMRSVHRAPHLPPALEVAREEIAWLLTM
QDPATGGVYHKVTTPSFPPLDTRPEDDDAPLVLSPISYAATATFCAAMAH
AALVYRPFDPALSSCCADAARRAYAWLGAHEMQPFHNPDGILTGEYGDAE
LRDELLWASCALLRMTGDSAWARVCEPLLDLDLPWELGWADVALYGVMDY
LRTPRAAVSDDVRNKVKSRLLRELDALAAMAESHPFGIPMRDDDFIWGSN
MVLLNRAMAFLLAEGVGVLHPAAHTVAQRAADYLFGANPLGQCYVTGFGQ
RPVRHPHHRPSVADDVDHPVPGMVVGGPNRHLQDEIARAQLAGRPAMEAY
IDHQDSYSTNEVAVYWNSPAVFVIAALLEA
Ligand information
Ligand IDG3I
InChIInChI=1S/C24H43NO18/c26-3-7-1-25-2-8(30)19(7)41-23-17(36)14(33)21(10(5-28)39-23)43-24-18(37)15(34)20(11(6-29)40-24)42-22-16(35)13(32)12(31)9(4-27)38-22/h7-37H,1-6H2/t7-,8-,9-,10-,11-,12-,13+,14-,15-,16-,17-,18-,19-,20-,21-,22+,23+,24+/m1/s1
InChIKeyWWLNURYAWFMUKB-QPKZCLDCSA-N
SMILES
SoftwareSMILES
CACTVS 3.341OC[CH]1CNC[CH](O)[CH]1O[CH]2O[CH](CO)[CH](O[CH]3O[CH](CO)[CH](O[CH]4O[CH](CO)[CH](O)[CH](O)[CH]4O)[CH](O)[CH]3O)[CH](O)[CH]2O
CACTVS 3.341OC[C@H]1CNC[C@@H](O)[C@@H]1O[C@@H]2O[C@H](CO)[C@@H](O[C@@H]3O[C@H](CO)[C@@H](O[C@@H]4O[C@H](CO)[C@@H](O)[C@H](O)[C@H]4O)[C@H](O)[C@H]3O)[C@H](O)[C@H]2O
OpenEye OEToolkits 1.5.0C1C(C(C(CN1)O)OC2C(C(C(C(O2)CO)OC3C(C(C(C(O3)CO)OC4C(C(C(C(O4)CO)O)O)O)O)O)O)O)CO
OpenEye OEToolkits 1.5.0C1[C@@H]([C@H]([C@@H](CN1)O)O[C@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O[C@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O[C@H]4[C@@H]([C@H]([C@@H]([C@H](O4)CO)O)O)O)O)O)O)O)CO
ACDLabs 10.04O(C2C(OC(OC1C(CO)CNCC1O)C(O)C2O)CO)C4OC(C(OC3OC(CO)C(O)C(O)C3O)C(O)C4O)CO
FormulaC24 H43 N O18
Name(3R,4R,5R)-3-hydroxy-5-(hydroxymethyl)piperidin-4-yl beta-D-glucopyranosyl-(1->4)-beta-D-glucopyranosyl-(1->4)-beta-D-glucopyranoside;
Cellotetraose-like isofagomine;
Cellotriosyl isofagomine
ChEMBL
DrugBank
ZINCZINC000098208919
PDB chain3rx7 Chain A Residue 604 [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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PDB3rx7 Fortuitious binding of inhibitors-derived isofagomine for inverting GH9 beta-glycosidases
Resolution2.02 Å
Binding residue
(original residue number in PDB)
A144 D146 Y300 W343 W401 H485 E515 Y519
Binding residue
(residue number reindexed from 1)
A140 D142 Y296 W339 W397 H481 E511 Y515
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=6.03,Ki=940nM
Enzymatic activity
Catalytic site (original residue number in PDB) D143 D146 Y300 E515
Catalytic site (residue number reindexed from 1) D139 D142 Y296 E511
Enzyme Commision number 3.2.1.4: cellulase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0008810 cellulase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
GO:0046872 metal ion binding
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0030245 cellulose catabolic process

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:3rx7, PDBe:3rx7, PDBj:3rx7
PDBsum3rx7
PubMed21785782
UniProtQ9AJS0

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