SMTL ID : 7t9e.2 (1 other biounit)

Crystal structure of dehaloperoxidase B in complex with +(-)-limonene oxide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: E.65, R.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.69

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

HEM.2: 18 residues within 4Å: Chain A: F.24, E.31, N.34, F.35, H.55, K.58, V.59, L.62, M.63, L.83, M.86, Q.88, H.89, L.92, N.96, F.97, L.127 Ligands: GH9.3 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.24, A:F.35, A:K.58, A:V.59, A:V.59, A:L.62, A:L.62, A:L.83, A:Q.88, A:Q.88, A:L.92, A:L.92, A:F.97, A:L.127 Hydrogen bonds: A:Q.88 Salt bridges: A:H.55, A:H.55, A:K.58 Metal complexes: A:H.89, H2O.1

1 x GH9: (1R,4R,6S)-1-methyl-4-(prop-1-en-2-yl)-7-oxabicyclo[4.1.0]heptane(Non-covalent)

GH9.3: 8 residues within 4Å: Chain A: F.21, F.35, Y.38, F.52, H.55, T.56, V.59 Ligands: HEM.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.38, A:F.52, A:H.55, A:T.56, A:V.59

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

SO4.4: 6 residues within 4Å: Chain A: Q.4, D.5, T.8, Q.113, S.114, F.115 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.4, A:T.8, A:T.8, A:Q.113, A:S.114, A:S.114 Water bridges: A:D.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malewschik, T. et al., The Multifunctional Globin Dehaloperoxidase as a Biocatalyst in the Oxidation of Monoterpenes. To Be Published

Release Date

2023-01-25

Peptides

Dehaloperoxidase B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
BBB

Dehaloperoxidase B

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