SMTL ID : 5opa.1

The crystal structure of P450 CYP121 in complex with lead compound 7b

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.34 Å

Oligo State

monomer

Ligands

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: P.330, N.331, P.332, T.333, S.334 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.333, A:T.333, A:S.334 Water bridges: A:T.333 SO4.2: 3 residues within 4Å: Chain A: S.12, R.14, R.17 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.12, A:S.12 Water bridges: A:A.13, A:R.14, A:R.17 Salt bridges: A:R.17 SO4.3: 5 residues within 4Å: Chain A: R.58, S.61, M.62, K.63, H.343 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:M.62, A:K.63 Water bridges: A:R.58, A:R.58, A:S.61 Salt bridges: A:R.58, A:K.63, A:H.343 SO4.6: 4 residues within 4Å: Chain A: R.134, N.135, F.161, R.381 6 PLIP interactions: 6 interactions with chain A Water bridges: A:S.165, A:S.165, A:R.381, A:R.381 Salt bridges: A:R.134, A:R.381 SO4.7: 6 residues within 4Å: Chain A: F.168, A.233, S.237, R.386 Ligands: HEM.4, A2W.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.237 Water bridges: A:A.233, A:R.386, A:R.386, A:R.386 Salt bridges: A:R.386

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.4: 21 residues within 4Å: Chain A: M.62, M.86, H.146, F.230, G.234, S.237, T.238, F.241, F.280, L.284, R.286, L.309, A.337, F.338, G.339, H.343, C.345, P.346, G.347 Ligands: A2W.5, SO4.7 14 PLIP interactions: 13 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.230, A:F.230, A:F.241, A:F.280, A:F.280, A:L.309, A:F.338, A:P.346 Water bridges: A:R.95, A:R.286 Salt bridges: A:R.286, A:H.343 Metal complexes: A:C.345, H2O.2

1 x A2W: 3-(4-fluorophenyl)-4-(imidazol-1-ylmethyl)-1-phenyl-pyrazole(Non-covalent)

A2W.5: 15 residues within 4Å: Chain A: T.77, V.78, V.82, N.85, L.164, A.167, F.168, W.182, V.228, T.229, G.232, A.233, Q.385 Ligands: HEM.4, SO4.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.78, A:N.85, A:L.164, A:A.167, A:F.168, A:W.182, A:V.228, A:T.229, A:A.233

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 3 residues within 4Å: Chain A: S.165, I.166, M.169 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taban, I.M. et al., Novel Aryl Substituted Pyrazoles as Small Molecule Inhibitors of Cytochrome P450 CYP121A1: Synthesis and Antimycobacterial Evaluation. J. Med. Chem. (2017)

Release Date

2018-03-28

Peptides

Mycocyclosin synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mycocyclosin synthase

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