SMTL ID : 6ch6.1 (1 other biounit)

Dehaloperoxidase B in complex with substrate 2,4-dimethoxyphenol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

HEM.1: 19 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.100, L.127 Ligands: F0J.5 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:F.24, A:F.35, A:F.35, A:V.59, A:L.62, A:M.63, A:L.83, A:Q.88, A:L.92, A:N.96, A:F.97, A:L.100, A:L.127 Water bridges: A:Y.38, A:H.55 Salt bridges: A:H.55, A:K.58 pi-Stacking: A:H.89 Metal complexes: A:H.89, H2O.3

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

SO4.2: 4 residues within 4Å: Chain A: G.1, F.2, K.3, D.116 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:F.2, A:K.3, A:D.116 Water bridges: A:G.1, A:Q.4, A:S.119 SO4.3: 3 residues within 4Å: Chain A: K.32, V.39, G.40 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.40, A:K.41 Salt bridges: A:K.32 SO4.4: 3 residues within 4Å: Chain A: G.95, E.98, K.99 5 PLIP interactions: 5 interactions with chain A Water bridges: A:T.94, A:G.95, A:K.99, A:K.99 Salt bridges: A:K.99

1 x F0J: 2,4-dimethoxyphenol(Non-covalent)

F0J.5: 9 residues within 4Å: Chain A: A.17, F.21, F.24, F.35, H.55, V.59, F.60, L.100 Ligands: HEM.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.21, A:V.59, A:L.100 Hydrogen bonds: A:H.55 pi-Stacking: A:F.21

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: Q.4, D.5, T.8, S.114, F.115 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.4, A:T.8 Water bridges: A:S.114, A:D.116 GOL.7: 3 residues within 4Å: Chain A: I.6, A.7, R.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.10, A:R.10 Water bridges: A:A.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGuire, A.H. et al., Peroxidase versus Peroxygenase Activity: Substrate Substituent Effects as Modulators of Enzyme Function in the Multifunctional Catalytic Globin Dehaloperoxidase. Biochemistry (2018)

Release Date

2019-01-16

Peptides

Dehaloperoxidase B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dehaloperoxidase B

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