SMTL ID : 4b7s.1 (1 other biounit)

PikC D50N mutant bound to the 10-DML analog with the 3-(N,N- dimethylamino)propanoate anchoring group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

monomer

Ligands

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

HEM.1: 29 residues within 4Å: Chain A: K.92, M.112, L.113, H.120, R.124, F.131, I.177, L.260, A.263, G.264, T.267, T.268, L.271, P.309, V.310, A.313, T.314, R.316, A.366, F.367, G.368, I.371, H.372, C.374, I.375, G.376, L.379, A.380 Ligands: QLE.3 22 PLIP interactions: 22 interactions with chain A, Hydrophobic interactions: A:L.113, A:L.113, A:F.131, A:I.177, A:L.260, A:T.267, A:L.271, A:P.309, A:V.310, A:F.367, A:F.367, A:I.375, A:L.379, A:A.380 Hydrogen bonds: A:T.314 Water bridges: A:H.372 Salt bridges: A:K.92, A:H.120, A:R.124, A:R.316, A:H.372 Metal complexes: A:C.374

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: L.126, T.240, R.247 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.247 Salt bridges: A:R.247 SO4.4: 2 residues within 4Å: Chain A: R.134, R.135 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.135, A:R.135 Salt bridges: A:R.134, A:R.135 SO4.5: 2 residues within 4Å: Chain A: V.193, E.213 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.213 SO4.6: 4 residues within 4Å: Chain A: A.53, R.56, P.346, H.353 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.56, A:R.56, A:E.347 Salt bridges: A:R.56 SO4.7: 3 residues within 4Å: Chain A: R.95, H.110, R.119 6 PLIP interactions: 6 interactions with chain A Water bridges: A:H.110, A:R.119, A:R.119 Salt bridges: A:R.95, A:H.110, A:R.119 SO4.8: 2 residues within 4Å: Chain A: E.243, D.244 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.243

1 x QLE: [(3R,4S,5S,7R,9E,11R,12R)-12-ethyl-3,5,7,11-tetramethyl-2,8-bis(oxidanylidene)-1-oxacyclododec-9-en-4-yl] 3-(dimethylamino)propanoate(Non-covalent)

QLE.3: 20 residues within 4Å: Chain A: W.94, L.101, E.105, N.109, L.113, E.114, F.198, V.199, H.258, I.259, V.262, A.263, E.266, T.267, T.314, N.412, M.414, I.415 Ligands: HEM.1, GOL.9 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.113, A:F.198, A:I.259, A:V.262, A:A.263, A:T.267, A:T.314, A:I.415 Salt bridges: A:E.114, A:H.258

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 5 residues within 4Å: Chain A: W.94, T.314, Y.315, M.414 Ligands: QLE.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.315 Water bridges: A:E.114 GOL.10: 3 residues within 4Å: Chain A: P.118, R.119, R.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.118, A:R.122 Water bridges: A:E.252 GOL.11: 8 residues within 4Å: Chain A: Y.49, N.274, Y.277, Y.306, E.307, R.344, W.409, R.416 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.49, A:Y.49, A:E.307, A:R.344, A:R.416 Water bridges: A:Y.277, A:Y.306, A:R.344 GOL.12: 3 residues within 4Å: Chain A: E.301, R.381, R.385 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.301, A:R.385, A:R.385 Water bridges: A:R.381, A:R.381 GOL.13: 2 residues within 4Å: Chain A: R.82, H.369 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.82, A:H.369 Water bridges: A:H.369 GOL.14: 4 residues within 4Å: Chain A: V.34, L.35, R.54, E.58 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.54, A:E.58

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Negretti, S. et al., Directing Group-Controlled Regioselectivity in an Enzymatic C-H Bond Oxygenation. J.Am.Chem.Soc. (2014)

Release Date

2013-08-28

Peptides

CYTOCHROME P450 HYDROXYLASE PIKC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CYTOCHROME P450 HYDROXYLASE PIKC

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