PDB Entry (3gdn) Download |
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Visualizer: MichelaNGLo |
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PDB ID: 3gdn | Resolution: 1.67 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 19256550 | DOI: 10.1021/bi802162s | |
Protein |
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Protein Name: (R)-mandelonitrile lyase 2 | |
Protein Class: LIGASE | |
Uniprot ID/ACC: Q945K2 (MDL2_PRUDU) | Organism: Prunus dulcis |
Gene Symbol: - | Gene ID: - |
Pocket Descriptors | |
Volume: 188.416 | Depth: 21.5095 |
Hydrophobicity: 0.712 | Drug Score: 0.0470923 |
Pocket Similarity: Calculate |
Ligand |
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Ligand Name: (2R)-hydroxy(phenyl)ethanenitrile | ||
HET ID: MXN | PubChem: 9548674 | |
DrugBank: - | ChEMBL: CHEMBL1234541 | |
Canonical SMILES: O[C@H](c1ccccc1)C#N | ||
Standard InChI: InChI=1S/C8H7NO/c9-6-8(10)7-4-2-1-3-5-7/h1-5,8,10H/t8-/m0/s1 | ||
Molecular Formula: C8H7NO | Mol. Weight: 133.14728 | Heavy Atoms: 10 |
Charge: 0 | Is Chiral: True | logP: 1.24358 |
HBD: 1 | HBA: 2 | TPSA: 44.02 |
#Bonds: 11 | #Rotatable Bonds: 1 | Shape Complexity: 0.14285715 |
Stereocomplexity: 0.125 | Ligand Type: Small Molecule |
Binding Affinity |
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