SMTL ID : 6t0k.1

Crystal structure of CYP124 in complex with inhibitor carbethoxyhexyl imidazole

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.18 Å

Oligo State

monomer

Ligands

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

HEM.1: 27 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, 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:A.274, A:P.321, A:V.322, A:V.322, A:Y.350, 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: 11 residues within 4Å: Chain A: F.114, I.204, V.273, A.274, T.278, V.322, M.325, F.423 Ligands: HEM.1, GOL.4, GOL.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.273, A:F.423, A:F.423

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: W.301, R.404 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.301 Hydrogen bonds: A:W.301, A:R.404 GOL.4: 9 residues within 4Å: Chain A: F.70, N.100, T.102, N.104, Q.106, L.110, F.114 Ligands: M65.2, GOL.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.100, A:T.102, A:N.104, A:Q.106, A:Q.106 Water bridges: A:F.114 GOL.5: 6 residues within 4Å: Chain A: D.43, R.292, W.318, A.319, H.425 Ligands: CL.9 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.292, A:W.318, A:R.355, A:H.425 Water bridges: A:R.17, A:R.292 GOL.6: 8 residues within 4Å: Chain A: T.102, I.204, L.205, G.206, F.207, F.423 Ligands: M65.2, GOL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.207 Water bridges: A:N.104

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

MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

CL.9: 4 residues within 4Å: Chain A: A.289, R.292, W.318 Ligands: GOL.5 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Varaksa, T. et al., Metabolic Fate of Human Immunoactive Sterols in Mycobacterium tuberculosis. J.Mol.Biol. (2021)

Release Date

2020-10-14

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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