Structure of PDB 5ofi Chain C Binding Site BS02

Receptor Information
>5ofi Chain C (length=121) Species: 29488 (Photorhabdus luminescens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SDWSGSVPANAENGKSTGLILKQGDTISVVAHGWVKYGRDNVEWAAPDGP
VPNNPQPSSIATLVAKIANKKFAIGNGVLHKTVPVDGELILLFNDVPGTF
GDNSGEFQVEVIIESRYSPLK
Ligand information
Ligand ID9TQ
InChIInChI=1S/C29H30N2O11S/c32-12-22-24(35)25(36)26(37)28(42-22)40-8-7-30-29(43)31-13-1-4-16(19(9-13)27(38)39)23-17-5-2-14(33)10-20(17)41-21-11-15(34)3-6-18(21)23/h1-6,9-10,22-26,28,32-33,35-37H,7-8,11-12H2,(H,38,39)(H2,30,31,43)/t22-,23?,24+,25+,26-,28+/m1/s1
InChIKeyVPENXLROBWFVHN-RFDUDFTJSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.6c1cc(c(cc1NC(=S)NCCOC2C(C(C(C(O2)CO)O)O)O)C(=O)O)C3c4ccc(cc4OC5=C3C=CC(=O)C5)O
CACTVS 3.385OC[CH]1O[CH](OCCNC(=S)Nc2ccc([CH]3C4=C(CC(=O)C=C4)Oc5cc(O)ccc35)c(c2)C(O)=O)[CH](O)[CH](O)[CH]1O
OpenEye OEToolkits 2.0.6c1cc(c(cc1NC(=S)NCCO[C@@H]2[C@@H]([C@H]([C@H]([C@H](O2)CO)O)O)O)C(=O)O)C3c4ccc(cc4OC5=C3C=CC(=O)C5)O
CACTVS 3.385OC[C@H]1O[C@H](OCCNC(=S)Nc2ccc([C@H]3C4=C(CC(=O)C=C4)Oc5cc(O)ccc35)c(c2)C(O)=O)[C@H](O)[C@@H](O)[C@H]1O
FormulaC29 H30 N2 O11 S
Name5-[2-[(2~{S},3~{R},4~{S},5~{R},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxyethylcarbamothioylamino]-2-(6-oxidanyl-3-oxidanylidene-4,9-dihydroxanthen-9-yl)benzoic acid
ChEMBL
DrugBank
ZINC
PDB chain5ofi Chain C Residue 202 [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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PDB5ofi Photorhabdus luminescens lectin A (PllA): A new probe for detecting alpha-galactoside-terminating glycoconjugates.
Resolution2.0 Å
Binding residue
(original residue number in PDB)
Y38 E44 Q57 I61 D96 V97 G99 T100 D103
Binding residue
(residue number reindexed from 1)
Y37 E43 Q56 I60 D95 V96 G98 T99 D102
Annotation score1
Binding affinityMOAD: Kd=62.7uM
PDBbind-CN: -logKd/Ki=4.20,Kd=62.7uM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0030246 carbohydrate binding
GO:0046872 metal ion binding

View graph for
Molecular Function
External links
PDB RCSB:5ofi, PDBe:5ofi, PDBj:5ofi
PDBsum5ofi
PubMed28972138
UniProtQ7N561|PLLA_PHOLL Lectin A (Gene Name=pllA)

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