SMTL ID : 8qrd.3 (5 other biounits)

OleP in complex with testosterone 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: 22 residues within 4Å: Chain A: V.96, L.97, H.104, R.108, F.115, I.160, A.247, G.248, T.251, L.293, R.301, F.324, A.351, F.352, G.353, H.357, C.359, I.360, G.361, G.365, L.369 Ligands: TES.2 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:F.115, A:I.160, A:A.247, A:L.293, A:F.352, A:I.360, A:L.369 Hydrogen bonds: A:A.356 Salt bridges: A:H.104, A:R.108, A:R.301, A:H.357 Metal complexes: A:C.359

1 x TES: TESTOSTERONE(Non-covalent)

TES.2: 10 residues within 4Å: Chain A: L.182, S.243, I.246, A.247, V.294, G.297, S.298, L.399, I.400 Ligands: HEM.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.182, A:I.246, A:V.294, A:V.294, A:L.399, A:I.400 Water bridges: A:E.92, A:F.299

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

FMT.3: 7 residues within 4Å: Chain A: S.23, P.25, D.29, L.30, D.31, Y.34, R.401 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.23, A:D.31, A:R.401 Water bridges: A:H.26, A:R.401 FMT.4: 5 residues within 4Å: Chain A: E.52, G.53, T.54, P.84, P.319 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.54, A:T.54 FMT.5: 6 residues within 4Å: Chain A: E.41, V.43, S.44, R.45, W.56 Ligands: FMT.14 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.41, A:R.45 FMT.6: 2 residues within 4Å: Chain A: A.225, D.229 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.229, A:D.229 FMT.7: 4 residues within 4Å: Chain A: R.109, G.112, K.113 Ligands: FMT.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.113 FMT.8: 3 residues within 4Å: Chain A: T.116 Ligands: FMT.7, FMT.9 No protein-ligand interaction detected (PLIP) FMT.9: 3 residues within 4Å: Chain A: T.116, A.117 Ligands: FMT.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.117 FMT.10: 3 residues within 4Å: Chain A: R.60, S.62, S.310 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.60, A:S.62 Water bridges: A:S.62, A:S.310 FMT.11: 6 residues within 4Å: Chain A: V.148, V.153, R.175, V.253, K.395, L.403 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.175, A:R.175, A:K.395 FMT.12: 4 residues within 4Å: Chain A: F.352, H.358, R.366 Ligands: FMT.13 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.366, A:R.366 Water bridges: A:H.349 FMT.13: 5 residues within 4Å: Chain A: E.285, N.347, H.349, R.366 Ligands: FMT.12 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.349, A:R.366 FMT.14: 5 residues within 4Å: Chain A: P.18, E.41, S.44, R.45 Ligands: FMT.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.45 Water bridges: A:S.44, A:S.44

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

NA.15: 3 residues within 4Å: Chain A: F.87, F.299, V.300 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.300 Water bridges: A:P.84, A:S.298

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
C

Cytochrome P-450

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