Structure of PDB 1naa Chain A Binding Site BS02

Receptor Information
>1naa Chain A (length=541) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TPYDYIIVGAGPGGIIAADRLSEAGKKVLLLERGGPSTKQTGGTYVAPWA
TSSGLTKFDIPGLFESLFTDSNPFWWCKDITVFAGCLVGGGTSVNGALYW
YPNDGDFSSSVGWPSSWTNHAPYTSKLSSRLPSTDHPSTDGQRYLEQSFN
VVSQLLKGQGYNQATINDNPNYKDHVFGYSAFDFLNGKRAGPVATYLQTA
LARPNFTFKTNVMVSNVVRNGSQILGVQTNDPTLGPNGFIPVTPKGRVIL
SAGAFGTSRILFQSGIGPTDMIQTVQSNPTAAAALPPQNQWINLPVGMNA
QDNPSINLVFTHPSIDAYENWADVWSNPRPADAAQYLANQSGVFAGASPK
LNFWRAYSGSDGFTRYAQGTVRPGAASVNSSLPYNASQIFTITVYLSTGI
QSRGRIGIDAALRGTVLTPPWLVNPVDKTVLLQALHDVVSNIGSIPGLTM
ITPDVTQTLEEYVDAYDPATMNSNHWVSSTTIGSSPQSAVVDSNVKVFGT
NNLFIVDAGIIPHLPTGNPQGTLMSAAEQAAAKILALAGGP
Ligand information
Ligand IDABL
InChIInChI=1S/C12H21NO10/c14-1-3-10(7(18)8(19)11(21)13-3)23-12-9(20)6(17)5(16)4(2-15)22-12/h3-10,12,14-20H,1-2H2,(H,13,21)/t3-,4-,5-,6+,7-,8-,9-,10-,12+/m1/s1
InChIKeyWXSNJJDPPISYEF-ZNLUKOTNSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01O=C2NC(C(OC1OC(C(O)C(O)C1O)CO)C(O)C2O)CO
OpenEye OEToolkits 1.7.2C([C@@H]1[C@H]([C@@H]([C@H](C(=O)N1)O)O)O[C@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O)O
CACTVS 3.370OC[C@H]1NC(=O)[C@H](O)[C@@H](O)[C@@H]1O[C@@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@H]2O
OpenEye OEToolkits 1.7.2C(C1C(C(C(C(=O)N1)O)O)OC2C(C(C(C(O2)CO)O)O)O)O
CACTVS 3.370OC[CH]1NC(=O)[CH](O)[CH](O)[CH]1O[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O
FormulaC12 H21 N O10
Name(2R,3R,4R,5R)-4,5-dihydroxy-2-(hydroxymethyl)-6-oxopiperidin-3-yl beta-D-glucopyranoside;
5-amino-5-deoxy-cellobiono-1,5-lactam;
(2R,3R,4R,5R)-4,5-dihydroxy-2-(hydroxymethyl)-6-oxopiperidin-3-yl beta-D-glucoside;
(2R,3R,4R,5R)-4,5-dihydroxy-2-(hydroxymethyl)-6-oxopiperidin-3-yl D-glucoside;
(2R,3R,4R,5R)-4,5-dihydroxy-2-(hydroxymethyl)-6-oxopiperidin-3-yl glucoside
ChEMBL
DrugBankDB04096
ZINCZINC000015787448
PDB chain1naa Chain A Residue 901 [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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PDB1naa Mechanism of the reductive half-reaction in cellobiose dehydrogenase
Resolution1.8 Å
Binding residue
(original residue number in PDB)
F278 E279 P563 R586 S687 N688 H689 N732
Binding residue
(residue number reindexed from 1)
F64 E65 P349 R372 S473 N474 H475 N518
Annotation score2
Binding affinityMOAD: Ki=0.25mM
Enzymatic activity
Catalytic site (original residue number in PDB) Y609 H689 N732
Catalytic site (residue number reindexed from 1) Y395 H475 N518
Enzyme Commision number 1.1.99.18: cellobiose dehydrogenase (acceptor).
Gene Ontology
Molecular Function
GO:0016614 oxidoreductase activity, acting on CH-OH group of donors
GO:0050660 flavin adenine dinucleotide binding

View graph for
Molecular Function
External links
PDB RCSB:1naa, PDBe:1naa, PDBj:1naa
PDBsum1naa
PubMed12493734
UniProtQ01738|CDH_PHACH Cellobiose dehydrogenase (Gene Name=CDH-1)

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