SMTL ID : 6tet.1

The structure of CYP121 in complex with inhibitor L21

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: R.210, S.216, V.218, D.220 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.220 EDO.3: 8 residues within 4Å: Chain A: M.62, V.78, V.82, V.83, N.85, M.86 Ligands: N5Z.2, HEM.9 1 PLIP interactions: 1 interactions with chain A Water bridges: A:V.83 EDO.5: 5 residues within 4Å: Chain A: T.27, R.28, E.29, P.30, D.296 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.28 EDO.6: 9 residues within 4Å: Chain A: D.16, R.17, I.18, S.248, Q.251, R.252, I.276, L.278, F.314 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.252, A:R.252 EDO.7: 5 residues within 4Å: Chain A: K.63, E.64, A.66, A.67, P.80 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.64 EDO.8: 6 residues within 4Å: Chain A: D.156, K.159, L.160, R.184, D.185, Y.188 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.184, A:R.184, A:D.185

1 x N5Z: 1-[(~{E})-3-[4-(4-fluorophenyl)phenyl]prop-2-enyl]imidazole(Non-covalent)

N5Z.2: 19 residues within 4Å: Chain A: T.77, V.78, S.163, L.164, A.167, F.168, A.178, N.181, W.182, D.185, V.228, T.229, G.232, A.233, F.280, L.284, R.386 Ligands: EDO.3, HEM.9 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.78, A:A.167, A:F.168, A:V.228 Hydrogen bonds: A:R.386 Water bridges: A:R.386 pi-Stacking: A:W.182

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

PGE.4: 6 residues within 4Å: Chain A: E.64, L.287, A.288, T.289, K.301, G.302 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.301

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

HEM.9: 30 residues within 4Å: Chain A: M.62, N.85, M.86, I.102, H.146, T.229, F.230, A.233, G.234, S.237, T.238, F.241, L.274, F.280, L.284, R.286, L.309, L.336, A.337, F.338, G.339, H.343, F.344, C.345, P.346, G.347, L.350, G.351 Ligands: N5Z.2, EDO.3 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.230, A:F.230, A:A.233, A:T.238, A:F.241, A:F.280, A:F.280, A:L.284, A:L.309, A:F.338, A:P.346 Water bridges: A:M.86, A:M.86, A:P.285, A:R.286 Salt bridges: A:R.286, A:H.343 pi-Stacking: A:F.338 Metal complexes: A:C.345, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Walter, I. et al., Structure-Activity Relationship and Mode-Of-Action Studies Highlight 1-(4-Biphenylylmethyl)-1H-imidazole-Derived Small Molecules as Potent CYP121 Inhibitors. Chemmedchem (2021)

Release Date

2021-05-26

Peptides

Mycocyclosin synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mycocyclosin synthase

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