Structure of PDB 6ghv Chain A Binding Site BS04

Receptor Information
>6ghv Chain A (length=132) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
CHPCPWEWTFFQGNCYFMSNSQRNWHDSITACKEVGAQLVVIKSAEEQNF
LQLQSSRSNRFTWMGLSDLNQEGTWQWVDGSPLLPSFKQYWNRGEPNNVG
EEDCAEFSGNGWNDDKCNLAKFWICKKSAASC
Ligand information
Ligand IDEZ8
InChIInChI=1S/C35H47ClN6O10/c36-9-10-50-27-11-25(33(48)38-14-20-1-5-22(17-43)6-2-20)26(34(49)39-15-21-3-7-23(18-44)8-4-21)12-28(27)51-35-30(42-16-24(13-37)40-41-42)32(47)31(46)29(19-45)52-35/h1-8,16,25-32,35,43-47H,9-15,17-19,37H2,(H,38,48)(H,39,49)/p+1/t25-,26-,27-,28-,29+,30-,31+,32+,35-/m0/s1
InChIKeyBYGZQFCUFRSCML-RWSQSUCKSA-O
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.6c1cc(ccc1CNC(=O)C2CC(C(CC2C(=O)NCc3ccc(cc3)CO)OC4C(C(C(C(O4)CO)O)O)n5cc(nn5)C[NH3+])OCCCl)CO
CACTVS 3.385[NH3+]Cc1cn(nn1)[CH]2[CH](O)[CH](O)[CH](CO)O[CH]2O[CH]3C[CH]([CH](C[CH]3OCCCl)C(=O)NCc4ccc(CO)cc4)C(=O)NCc5ccc(CO)cc5
OpenEye OEToolkits 2.0.6c1cc(ccc1CNC(=O)[C@H]2C[C@@H]([C@H](C[C@@H]2C(=O)NCc3ccc(cc3)CO)O[C@@H]4[C@H]([C@H]([C@@H]([C@H](O4)CO)O)O)n5cc(nn5)C[NH3+])OCCCl)CO
CACTVS 3.385[NH3+]Cc1cn(nn1)[C@H]2[C@@H](O)[C@H](O)[C@@H](CO)O[C@@H]2O[C@H]3C[C@@H]([C@H](C[C@@H]3OCCCl)C(=O)NCc4ccc(CO)cc4)C(=O)NCc5ccc(CO)cc5
FormulaC35 H48 Cl N6 O10
Name[1-[(2~{S},3~{S},4~{R},5~{S},6~{R})-2-[(1~{S},2~{S},4~{S},5~{S})-2-(2-chloroethyloxy)-4,5-bis[[4-(hydroxymethyl)phenyl]methylcarbamoyl]cyclohexyl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-1,2,3-triazol-4-yl]methylazanium
ChEMBL
DrugBank
ZINC
PDB chain6ghv Chain B Residue 1001 [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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PDB6ghv Enhancing Potency and Selectivity of a DC-SIGN Glycomimetic Ligand by Fragment-Based Design: Structural Basis.
Resolution2.1 Å
Binding residue
(original residue number in PDB)
Q264 G265
Binding residue
(residue number reindexed from 1)
Q12 G13
Annotation score1
Binding affinityMOAD: Kd=52uM
PDBbind-CN: -logKd/Ki=4.28,Kd=52.0uM
Enzymatic activity
Enzyme Commision number ?
External links
PDB RCSB:6ghv, PDBe:6ghv, PDBj:6ghv
PDBsum6ghv
PubMed31469191
UniProtQ9NNX6|CD209_HUMAN CD209 antigen (Gene Name=CD209)

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