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

Structure of the L100F mutant of dehaloperoxidase-hemoglobin A from Amphitrite ornata with 4-bromophenol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.12 Å

Oligo State

monomer

Ligands

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

HEM.1: 21 residues within 4Å: Chain A: F.24, E.31, Y.34, F.35, Y.38, 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, F.100, L.127 Ligands: BML.6 18 PLIP interactions: 17 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:F.24, 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:F.100, A:L.127 Hydrogen bonds: A:Q.88 Water bridges: A:Y.38 Salt bridges: A:H.55 pi-Cation interactions: A:H.55 Metal complexes: A:H.89, H2O.9

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

SO4.2: 4 residues within 4Å: Chain A: G.1, F.2, K.3, D.116 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.2, A:K.3, A:D.116 SO4.3: 3 residues within 4Å: Chain A: R.32, V.39, G.40 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.40 Salt bridges: A:R.32 SO4.4: 2 residues within 4Å: Chain A: R.109, Q.118 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.118 Salt bridges: A:R.109

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 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:Q.4, A:T.8, A:Q.113, A:S.114

1 x BML: 4-BROMOPHENOL(Covalent)

BML.6: 8 residues within 4Å: Chain A: F.21, F.35, Y.38, H.55, T.56, V.59, F.100 Ligands: HEM.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.21, A:F.35, A:H.55, A:H.55, A:T.56, A:V.59 Water bridges: A:Y.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plummer, A. et al., Role of polarity of the distal pocket in the control of inhibitor binding in dehaloperoxidase-hemoglobin. Biochemistry (2013)

Release Date

2013-05-01

Peptides

Dehaloperoxidase A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dehaloperoxidase A

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