Structure of PDB 1m7d Chain B Binding Site BS01

Receptor Information
>1m7d Chain B (length=220) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EVKVEESGGGLVQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEWVAE
IRLKSNNYATHYAESVKGRFTISRDDSKSSVYLQMNNLRAEDTGIYYCTR
GGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSSVTLGCLVK
GYFPEPVTVKWNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTV
ICNVAHPASKVDLIKEPSGP
Ligand information
Ligand IDRAE
InChIInChI=1S/C6H12O4/c1-3-6(9)4(7)2-5(8)10-3/h3-9H,2H2,1H3/t3-,4-,5+,6-/m0/s1
InChIKeyFDWRIIDFYSUTDP-AZGQCCRYSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01OC1C(OC(O)CC1O)C
CACTVS 3.370C[CH]1O[CH](O)C[CH](O)[CH]1O
OpenEye OEToolkits 1.7.6C[C@H]1[C@@H]([C@H](C[C@@H](O1)O)O)O
CACTVS 3.370C[C@@H]1O[C@@H](O)C[C@H](O)[C@H]1O
OpenEye OEToolkits 1.7.6CC1C(C(CC(O1)O)O)O
FormulaC6 H12 O4
Namealpha-L-Olivopyranose;
alpha-L-Olivose;
2,6-dideoxy-alpha-L-arabino-hexopyranose;
2,6-dideoxy-alpha-L-glucopyranose;
2,6-dideoxy-alpha-L-mannopyranose;
2-deoxy-alpha-L-quinovopyranose;
2-deoxy-alpha-L-rhamnoopyranose;
L-Olivose;
Olivose;
2-DEOXY-ALPHA-RHAMNOSE
ChEMBL
DrugBank
ZINC
PDB chain1m7d Chain C Residue 2 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1m7d Molecular Recognition of Oligosaccharide Epitopes by a Monoclonal Fab Specific for Shigella flexneri Y Lipopolysaccharide: X-ray Structures and Thermodynamics
Resolution2.3 Å
Binding residue
(original residue number in PDB)
G95 G99
Binding residue
(residue number reindexed from 1)
G101 G105
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=6.23,Kd=0.59uM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003823 antigen binding
Biological Process
GO:0002250 adaptive immune response
GO:0016064 immunoglobulin mediated immune response
Cellular Component
GO:0019814 immunoglobulin complex

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:1m7d, PDBe:1m7d, PDBj:1m7d
PDBsum1m7d
PubMed12427018
UniProtP01801|HVM32_MOUSE Ig heavy chain V-III region J606

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