PDB Entry (4c5l) |
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PDB ID: 4c5l | Resolution: 1.85 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 24601602 | DOI: 10.1021/JA411785R | |
Protein |
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Protein Name: Phosphomethylpyrimidine kinase | |
Uniprot ID/ACC: A0A0H3JTP0 (A0A0H3JTP0_STAAM) | Organism: Staphylococcus aureus (strain Mu50 / ATCC 700699) |
Gene Symbol: SAV0580 | Gene ID: - |
Protein Class: HYDROLASE |
Ligand |
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Ligand Name: Pyridoxal | ||
Canonical SMILES: Cc1ncc(CO)c(C=O)c1O | ||
Standard InChI: InChI=1S/C8H9NO3/c1-5-8(12)7(4-11)6(3-10)2-9-5/h2,4,10,12H,3H2,1H3 | ||
HET Code: UEG | PubChem: 1050 | |
DrugBank: DB00147 | ChEMBL: CHEMBL102970 | |
Molecular Formula: C8H9NO3 | Mol. Weight: 167.05824 | logP: 0.40042 |
HBD: 2 | HBA: 4 | |
#Rotatable Bonds: 2 | TPSA: 70.42 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Hemi(thio)acetalization | CYS 110 | A | 31.72 | 13.25 | Aldehyde |
Binding Affinity |
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