SMTL ID : 6oyu.2 (1 other biounit)

Structure of an ancestral-reconstructed cytochrome P450 1B1 with alpha-naphthoflavone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

monomer

Ligands

4 x BHF: 2-PHENYL-4H-BENZO[H]CHROMEN-4-ONE(Non-covalent)

BHF.1: 19 residues within 4Å: Chain A: V.88, S.89, S.93, A.95, F.96, H.189, N.190, F.193, G.194, F.230, T.287, D.288, G.291, A.292, Q.294, D.295, I.361, L.471 Ligands: BHF.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.88, A:A.95, A:F.96, A:F.96, A:N.190, A:F.193, A:F.193, A:F.193, A:A.292, A:D.295, A:L.471 Hydrogen bonds: A:H.189 Water bridges: A:Q.294 BHF.2: 18 residues within 4Å: Chain A: L.51, F.82, S.84, F.85, F.96, S.201, D.204, V.205, V.357, V.359, T.360, I.361, P.362, F.383, L.471 Ligands: BHF.3, BHF.4, GOL.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.82, A:D.204, A:V.205, A:V.359, A:I.361, A:P.362 BHF.3: 13 residues within 4Å: Chain A: S.84, F.85, V.88, F.96, F.193, V.197, S.201, F.223, L.471 Ligands: BHF.1, BHF.2, BHF.4, GOL.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.85, A:F.85, A:F.96, A:F.193, A:F.223, A:L.471 Hydrogen bonds: A:S.201 BHF.4: 15 residues within 4Å: Chain A: W.19, P.20, A.31, P.32, L.51, G.198, S.201, L.202, V.205, Y.469, G.470, L.471 Ligands: BHF.2, BHF.3, GOL.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.19, A:P.20, A:L.51, A:L.202, A:V.205

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

HEM.5: 33 residues within 4Å: Chain A: R.79, L.94, A.95, W.103, R.107, V.114, M.167, M.254, D.288, I.289, A.292, S.293, T.296, L.297, A.300, F.356, V.357, V.359, T.360, I.361, H.363, Q.386, I.424, F.425, S.426, R.430, R.431, C.432, I.433, G.434, L.437, S.438, L.442 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:A.95, A:V.114, A:I.289, A:A.292, A:L.297, A:F.356, A:F.356, A:V.357, A:V.357, A:I.361, A:I.424, A:F.425, A:F.425, A:I.433 Hydrogen bonds: A:A.95, A:I.361, A:S.426 Salt bridges: A:R.79, A:R.79, A:R.107, A:H.363, A:R.430 Metal complexes: A:C.432

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 13 residues within 4Å: Chain A: A.31, P.32, H.33, P.358, V.359, Y.469, G.470, L.471, T.472, I.473 Ligands: BHF.2, BHF.3, BHF.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.33, A:H.33, A:G.470, A:T.472 GOL.7: 6 residues within 4Å: Chain A: Q.121, P.122, R.123, R.126, A.250, P.251 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.121, A:R.123, A:R.123, A:R.126 GOL.8: 9 residues within 4Å: Chain A: F.85, Q.86, V.88, G.91, R.92, S.93, F.96, G.97, R.98 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:F.85, A:Q.86, A:Q.86, A:G.91, A:S.93, A:S.93 GOL.9: 7 residues within 4Å: Chain A: E.182, G.185, L.186, H.189, D.229, F.230, F.233 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bart, A.G. et al., Structure of an ancestral mammalian family 1B1 cytochrome P450 with increased thermostability. J.Biol.Chem. (2020)

Release Date

2020-03-18

Peptides

Cytochrome P450 1B1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Cytochrome P450 1B1

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