SMTL ID : 7zb9.1

Crystal structure of CYP124 in complex with inhibitor carbethoxyhexyl imidazole in the absence of glycerol (NoCryo)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

monomer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: M.117, I.118, H.125, R.129, F.136, I.183, L.270, L.271, A.274, G.275, T.278, T.279, P.321, V.322, M.325, R.327, Y.350, G.377, F.378, G.379, A.383, H.384, F.385, C.386, L.387, G.388, A.392 Ligands: M65.2 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:I.118, A:F.136, A:I.183, A:L.270, A:P.321, A:V.322, A:V.322, A:Y.350, A:F.378, A:F.378, A:L.387, A:A.392 Water bridges: A:R.327, A:R.327, A:Y.350, A:Y.350, A:F.378, A:G.381 Salt bridges: A:H.125, A:R.129, A:R.327, A:H.384 Metal complexes: A:C.386

1 x M65: ethyl 7-imidazol-1-ylheptanoate(Non-covalent)

M65.2: 10 residues within 4Å: Chain A: F.114, I.204, L.205, V.273, A.274, T.278, V.322, M.325, F.423 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.273, A:F.423

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 1 residues within 4Å: Chain A: P.108 No protein-ligand interaction detected (PLIP) PGE.4: 3 residues within 4Å: Chain A: H.153, R.154, S.157 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.153, A:S.157 Water bridges: A:R.154

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 3 residues within 4Å: Chain A: N.19, E.295, Q.296 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain A: E.357, W.364 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bukhdruker, S. et al., Structural insights into the effects of glycerol on ligand binding to cytochrome P450. Acta Crystallogr D Struct Biol (2023)

Release Date

2023-01-11

Peptides

CYP124 in complex with inhibitor carbethoxyhexyl imidazole: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CYP124 in complex with inhibitor carbethoxyhexyl imidazole

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