SMTL ID : 8ejn.1 (1 other biounit)

Structure of dehaloperoxidase A in complex with 2,4-dichlorophenol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.48 Å

Oligo State

monomer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: F.24, E.31, Y.34, F.35, D.54, 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: 5JC.2 19 PLIP interactions: 18 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:F.24, A:F.35, A:V.59, A:V.59, A:L.62, A:L.62, A:L.83, A:Q.88, A:L.92, A:N.96, A:F.97, A:L.100, A:L.127 Water bridges: A:Q.88 Salt bridges: A:H.55 pi-Cation interactions: A:H.55, A:H.55 Metal complexes: A:H.89, H2O.4

1 x 5JC: 2,4-dichlorophenol(Covalent)

5JC.2: 7 residues within 4Å: Chain A: F.21, F.35, H.55, T.56, V.59, L.100 Ligands: HEM.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.21, A:F.21, A:F.35, A:H.55, A:T.56, A:V.59

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: Q.4, D.5, T.8, Q.113, S.114, F.115 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.4, A:D.5, A:D.5, A:Q.113, A:S.114

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

SO4.4: 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 Water bridges: A:Q.4, A:D.116, A:S.119, A:S.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aktar, M.S. et al., Comparative study of the binding and activation of 2,4-dichlorophenol by dehaloperoxidase A and B. J.Inorg.Biochem. (2023)

Release Date

2023-08-23

Peptides

Dehaloperoxidase A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dehaloperoxidase A

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