SMTL ID : 8qyi.2 (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: 23 residues within 4Å: Chain A: V.84, L.85, H.92, R.96, F.103, I.148, A.235, G.236, T.239, S.240, L.281, F.287, R.289, F.312, A.339, F.340, G.341, H.345, C.347, I.348, G.349, G.353 Ligands: 4OA.2 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:F.103, A:I.148, A:A.235, A:T.239, 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: 14 residues within 4Å: Chain A: E.80, G.83, M.169, L.170, N.227, S.231, I.234, T.239, V.282, S.286, I.388 Ligands: HEM.1, FMT.14, FMT.17 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.170, A:I.234, A:T.239, A:V.282 Hydrogen bonds: A:N.227, A:S.231 Water bridges: A:V.84, A:G.285, A:S.286, A:F.287

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

FMT.3: 4 residues within 4Å: Chain A: E.80, Q.184, Q.185, M.188 Ligand excluded by PLIP FMT.4: 3 residues within 4Å: Chain A: D.91, H.219, E.224 Ligand excluded by PLIP FMT.5: 5 residues within 4Å: Chain A: E.296, L.297, T.299, V.300, T.301 Ligand excluded by PLIP FMT.6: 3 residues within 4Å: Chain A: M.49, R.53, V.321 Ligand excluded by PLIP FMT.7: 2 residues within 4Å: Chain A: V.5, R.35 Ligand excluded by PLIP FMT.8: 7 residues within 4Å: Chain A: S.11, P.13, D.17, L.18, D.19, Y.22, R.389 Ligand excluded by PLIP FMT.9: 3 residues within 4Å: Chain A: R.367, F.368, W.398 Ligand excluded by PLIP FMT.10: 3 residues within 4Å: Chain A: L.122, D.125, F.138 Ligand excluded by PLIP FMT.11: 3 residues within 4Å: Chain A: T.176, A.177, A.178 Ligand excluded by PLIP FMT.12: 6 residues within 4Å: Chain A: R.112, R.116, P.269, Q.358, E.359, S.362 Ligand excluded by PLIP FMT.13: 7 residues within 4Å: Chain A: V.282, A.284, G.285, V.310, H.311, F.312, A.313 Ligand excluded by PLIP FMT.14: 7 residues within 4Å: Chain A: E.80, G.83, L.85, A.86, F.287 Ligands: 4OA.2, FMT.17 Ligand excluded by PLIP FMT.15: 3 residues within 4Å: Chain A: V.321, F.322, D.323 Ligand excluded by PLIP FMT.16: 2 residues within 4Å: Chain A: G.305, E.306 Ligand excluded by PLIP FMT.17: 5 residues within 4Å: Chain A: F.75, L.85, F.287 Ligands: 4OA.2, FMT.14 Ligand excluded by PLIP FMT.18: 2 residues within 4Å: Chain A: A.64, T.67 Ligand excluded by PLIP FMT.19: 3 residues within 4Å: Chain A: R.334, N.335, P.336 Ligand excluded by PLIP FMT.20: 2 residues within 4Å: Chain A: T.104, A.105 Ligand excluded by PLIP FMT.21: 3 residues within 4Å: Chain A: A.178, E.179 Ligands: FMT.22 Ligand excluded by PLIP FMT.22: 4 residues within 4Å: Chain A: E.179, V.183 Ligands: FMT.21, FMT.24 Ligand excluded by PLIP FMT.23: 5 residues within 4Å: Chain A: V.141, P.142, V.145, R.159, R.163 Ligand excluded by PLIP FMT.24: 2 residues within 4Å: Chain A: T.164 Ligands: FMT.22 Ligand excluded by PLIP

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

NA.25: 4 residues within 4Å: Chain A: R.73, F.75, F.287, V.288 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.288

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
B

Cytochrome P-450

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