Structure of PDB 8smd Chain B Binding Site BS02

Receptor Information
>8smd Chain B (length=123) Species: 1491 (Clostridium botulinum) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KELSTIQKREKLNTVERIGSEGPGGAYHEYVIKSNSMDSQGNYDVYETIK
FQKGARKEEKSQHGVIDSDLLEIVRDRLKSFQAGPFSSRENACALTHVEE
ALMWMNRRVEDRIERNVLGTNTK
Ligand information
Ligand IDOJC
InChIInChI=1S/C15H21N5O13P2/c16-12-7-13(18-3-17-12)20(4-19-7)14-10(23)11-6(30-14)2-29-35(26,27)33-34(24,25)28-1-5-8(21)9(22)15(31-5)32-11/h3-6,8-11,14-15,21-23H,1-2H2,(H,24,25)(H,26,27)(H2,16,17,18)/t5-,6-,8-,9-,10-,11-,14-,15+/m1/s1
InChIKeyNDSLKXAJVDJCEG-ZQSHOCFMSA-N
SMILES
SoftwareSMILES
CACTVS 3.385Nc1ncnc2n(cnc12)[CH]3O[CH]4CO[P](O)(=O)O[P](O)(=O)OC[CH]5O[CH](O[CH]4[CH]3O)[CH](O)[CH]5O
OpenEye OEToolkits 2.0.7c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H]4[C@H](O3)COP(=O)(OP(=O)(OC[C@@H]5[C@H]([C@H]([C@@H](O5)O4)O)O)O)O)O)N
OpenEye OEToolkits 2.0.7c1nc(c2c(n1)n(cn2)C3C(C4C(O3)COP(=O)(OP(=O)(OCC5C(C(C(O5)O4)O)O)O)O)O)N
ACDLabs 12.01Nc1ncnc2c1ncn2C1OC2COP(=O)(O)OP(=O)(O)OCC3OC(OC2C1O)C(O)C3O
CACTVS 3.385Nc1ncnc2n(cnc12)[C@@H]3O[C@@H]4CO[P](O)(=O)O[P](O)(=O)OC[C@H]5O[C@@H](O[C@H]4[C@H]3O)[C@H](O)[C@@H]5O
FormulaC15 H21 N5 O13 P2
Name(2R,3R,3aS,5S,6R,7S,8R,11R,13S,15aR)-2-(6-amino-9H-purin-9-yl)-3,6,7,11,13-pentahydroxyoctahydro-2H,5H,11H,13H-5,8-epoxy-11lambda~5~,13lambda~5~-furo[2,3-g][1,3,5,9,2,4]tetraoxadiphosphacyclotetradecine-11,13-dione
ChEMBL
DrugBank
ZINC
PDB chain8smd Chain B Residue 201 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8smd Phages overcome bacterial immunity via diverse anti-defense proteins
Resolution2.1 Å
Binding residue
(original residue number in PDB)
P25 G26 H30 Q54 G56 A57 R58 R110 R114 L120 G121 N123
Binding residue
(residue number reindexed from 1)
P23 G24 H28 Q52 G54 A55 R56 R108 R112 L118 G119 N121
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding

View graph for
Molecular Function
External links
PDB RCSB:8smd, PDBe:8smd, PDBj:8smd
PDBsum8smd
PubMed37992756
UniProtP0DW58|TAD1_CLOBO Thoeris anti-defense 1 (Gene Name=tad1)

[Back to BioLiP]