SMTL ID : 5e7y.1

Crystal structure of P450 BM3 heme domain M7 variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 25 residues within 4Å: Chain A: K.69, L.75, L.86, A.87, W.96, F.107, A.264, G.265, T.268, T.269, L.272, T.327, A.328, F.331, P.392, F.393, G.394, R.398, A.399, C.400, I.401, G.402, F.405, A.406 Ligands: GOL.2 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:L.86, A:A.87, A:F.107, A:A.264, A:T.268, A:L.272, A:A.328, A:F.393, A:I.401, A:F.405 Hydrogen bonds: A:R.398 Water bridges: A:S.332, A:S.332, A:S.332, A:R.398 Salt bridges: A:K.69, A:K.69, A:R.398 Metal complexes: A:C.400, H2O.1 HEM.7: 25 residues within 4Å: Chain B: K.69, L.75, L.86, A.87, W.96, F.107, A.264, G.265, T.268, T.269, L.272, T.327, A.328, F.331, P.392, F.393, G.394, R.398, A.399, C.400, I.401, G.402, F.405, A.406 Ligands: GOL.8 20 PLIP interactions: 19 interactions with chain B, 1 Ligand-Water interactions Hydrophobic interactions: B:L.86, B:A.87, B:F.107, B:A.264, B:T.268, B:L.272, B:F.393, B:I.401, B:F.405 Hydrogen bonds: B:R.398 Water bridges: B:K.69, B:K.69, B:S.332, B:S.332, B:S.332 Salt bridges: B:K.69, B:K.69, B:R.398 Metal complexes: B:C.400, H2O.10

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: A.87, A.264, T.268, A.328 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) GOL.3: 5 residues within 4Å: Chain A: R.132 Chain B: V.120, D.121, V.124 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.132 GOL.4: 4 residues within 4Å: Chain A: M.5, K.41, R.50, L.347 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.41, A:R.50, A:R.50 Water bridges: A:E.348 GOL.5: 5 residues within 4Å: Chain A: K.391, G.394, N.395, G.396, Q.403 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.391, A:N.395, A:G.396, A:Q.403, A:Q.403 Water bridges: A:N.395 GOL.6: 6 residues within 4Å: Chain A: Q.128, E.131, R.132 Chain B: D.121, R.161 Ligands: GOL.3 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.132, B:D.121, B:R.161, B:R.161 GOL.8: 5 residues within 4Å: Chain B: A.87, A.264, A.328, L.437 Ligands: HEM.7 No protein-ligand interaction detected (PLIP) GOL.9: 7 residues within 4Å: Chain B: W.130, L.133, N.134, A.135, A.448, S.450, K.452 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.130, B:S.450, B:K.452, B:K.452 Water bridges: B:A.448, B:S.450 GOL.10: 5 residues within 4Å: Chain B: K.391, G.394, N.395, G.396, Q.403 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:K.391, B:G.396, B:Q.403, B:Q.403 Water bridges: B:H.388, B:K.391, B:N.395

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Panneerselvm, S. et al., Crystal structure of P450 BM3 heme domain M7 variant. To Be Published

Release Date

2017-01-25

Peptides

Bifunctional P-450/NADPH-P450 reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional P-450/NADPH-P450 reductase