SMTL ID : 7m1k.2 (1 other biounit)

Crystal structure of dehaloperoxidase B in complex with 2,6-difluorophenol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: E.65, R.69 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.65, A:R.69 GOL.3: 5 residues within 4Å: Chain A: Q.4, D.5, T.8, Q.113, S.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.4, A:D.5, A:Q.113, A:S.114

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: FFP.4 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.83, A:Q.88, A:Q.88, A:L.92, A:F.97, A:F.97, A:L.127 Salt bridges: A:H.55, A:K.58 pi-Stacking: A:H.55 pi-Cation interactions: A:H.55, A:H.89 Metal complexes: A:H.89, H2O.1

1 x FFP: 2,6-DIFLUOROPHENOL(Non-covalent)

FFP.4: 8 residues within 4Å: Chain A: F.21, F.35, H.55, T.56, V.59, F.60, L.100 Ligands: HEM.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.21, A:T.56, A:V.59, A:F.60, A:L.100 Hydrogen bonds: A:H.55 pi-Stacking: A:F.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malewschik, T. et al., Bridging the functional gap between reactivity and inhibition in dehaloperoxidase B from Amphitrite ornata: Mechanistic and structural studies with 2,4- and 2,6-dihalophenols. J.Inorg.Biochem. (2022)

Release Date

2022-08-31

Peptides

Dehaloperoxidase B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Dehaloperoxidase B

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