SMTL ID : 8qyi.5 (5 other biounits)

OleP in complex with lithocholic acid in high salt crystallization conditions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: V.84, L.85, H.92, R.96, F.103, I.148, L.232, A.235, G.236, T.239, Q.243, L.281, F.287, R.289, F.312, A.339, F.340, G.341, H.345, C.347, I.348, G.349 Ligands: 4OA.2, FMT.5 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:V.84, A:F.103, A:I.148, A:A.235, A:Q.243, A:L.281, A:F.312, A:F.340, A:I.348 Hydrogen bonds: A:F.287 Salt bridges: A:H.92, A:R.96, A:R.289, A:H.345 Metal complexes: A:C.347

1 x 4OA: (3beta,5beta,14beta,17alpha)-3-hydroxycholan-24-oic acid(Non-covalent)

4OA.2: 17 residues within 4Å: Chain A: E.80, G.83, L.85, M.169, L.170, N.227, S.231, I.234, T.239, V.282, G.285, S.286, I.388 Ligands: HEM.1, FMT.3, FMT.4, FMT.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.85, A:L.170, A:I.234, A:T.239, A:V.282 Hydrogen bonds: A:N.227, A:S.231, A:G.285 Water bridges: A:F.287

10 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 7 residues within 4Å: Chain A: P.79, E.80, G.83, L.85, F.287 Ligands: 4OA.2, FMT.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.80, A:L.85 FMT.4: 5 residues within 4Å: Chain A: F.75, S.286, F.287 Ligands: 4OA.2, FMT.7 3 PLIP interactions: 3 interactions with chain A Water bridges: A:F.287, A:F.287, A:V.288 FMT.5: 6 residues within 4Å: Chain A: T.279, P.280, L.281, V.282, A.339 Ligands: HEM.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.281, A:V.282, A:A.339 Water bridges: A:Q.243, A:A.313 FMT.6: 6 residues within 4Å: Chain A: F.75, P.76, T.77, M.169, S.171, I.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.77, A:T.77 FMT.7: 6 residues within 4Å: Chain A: F.75, L.85, F.287 Ligands: 4OA.2, FMT.3, FMT.4 No protein-ligand interaction detected (PLIP) FMT.8: 4 residues within 4Å: Chain A: P.155, D.158, L.194, Q.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.197 FMT.9: 4 residues within 4Å: Chain A: R.257, L.328, D.329, F.330 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.330 FMT.10: 1 residues within 4Å: Chain A: A.128 No protein-ligand interaction detected (PLIP) FMT.11: 4 residues within 4Å: Chain A: E.109, E.110, R.112, P.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.109 FMT.12: 1 residues within 4Å: Chain A: R.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.182

1 x NA: SODIUM ION(Non-functional Binders)

NA.13: 4 residues within 4Å: Chain A: R.73, F.75, F.287, V.288 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.288 Water bridges: A:P.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Costanzo, A. et al., Binding of steroid substrates reveals the key to the productive transition of the cytochrome P450 OleP. Structure (2024)

Release Date

2024-07-03

Peptides

Cytochrome P-450: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

Cytochrome P-450

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