Structure of PDB 8rda Chain H Binding Site BS01

Receptor Information
>8rda Chain H (length=222) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EVQLVESGGGLVTPGGSLRLSCAASGFTFNTYSMNWVRQAPGKGLEWVSS
ISRSSDYIYYADSVKGRFTISRDNAKNSVYLQMTSLRDEDTAVYYCARDP
GGMPTTVTTWLYWGQGTLVTVSSASTKGPSVFPLAPSSTSGGTAALGCLV
KDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQ
TYICNVNHKPSNTKVDKRVEPK
Ligand information
Ligand IDA1H1A
InChIInChI=1S/C20H40O23P2/c21-1-7(24)13(28)9(26)5-38-45(35,36)43-18-12(3-23)41-20(16(18)31)37-4-8(25)14(29)10(27)6-39-44(33,34)42-17-11(2-22)40-19(32)15(17)30/h7-32H,1-6H2,(H,33,34)(H,35,36)/t7-,8-,9+,10+,11+,12+,13-,14-,15+,16+,17+,18+,19+,20+/m0/s1
InChIKeyHIDLWJXKOHQXBH-VBFGRUPISA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7C([C@@H]1[C@H]([C@H]([C@@H](O1)O)O)OP(=O)(O)OC[C@H]([C@H]([C@H](CO[C@H]2[C@@H]([C@@H]([C@H](O2)CO)OP(=O)(O)OC[C@H]([C@H]([C@H](CO)O)O)O)O)O)O)O)O
OpenEye OEToolkits 2.0.7C(C1C(C(C(O1)O)O)OP(=O)(O)OCC(C(C(COC2C(C(C(O2)CO)OP(=O)(O)OCC(C(C(CO)O)O)O)O)O)O)O)O
CACTVS 3.385OC[C@H](O)[C@H](O)[C@H](O)CO[P](O)(=O)O[C@H]1[C@@H](O)[C@H](OC[C@H](O)[C@H](O)[C@H](O)CO[P](O)(=O)O[C@H]2[C@@H](O)[C@H](O)O[C@@H]2CO)O[C@@H]1CO
CACTVS 3.385OC[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[CH]1[CH](O)[CH](OC[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[CH]2[CH](O)[CH](O)O[CH]2CO)O[CH]1CO
FormulaC20 H40 O23 P2
NameHaemophilus influenzae type b (Hib) DP2 oligosaccharide;
[(2~{R},3~{S},4~{R},5~{R})-2-(hydroxymethyl)-4,5-bis(oxidanyl)oxolan-3-yl] [(2~{R},3~{S},4~{S})-5-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3-oxidanyl-4-[oxidanyl-[(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentoxy]phosphoryl]oxy-oxolan-2-yl]oxy-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate
ChEMBL
DrugBank
ZINC
PDB chain8rda Chain H Residue 301 [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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PDB8rda A Multidisciplinary Structural Approach to the Identification of the Haemophilus influenzae Type b Capsular Polysaccharide Protective Epitope
Resolution2.29 Å
Binding residue
(original residue number in PDB)
F27 T28 T31 Y32 S33 S52 R53 D99 G101 G102 M103 P104 T105 T106
Binding residue
(residue number reindexed from 1)
F27 T28 T31 Y32 S33 S52 R53 D99 G101 G102 M103 P104 T105 T106
Annotation score1
External links