SMTL ID : 5v5q.1

Dehaloperoxidase B L9I mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: F.24, E.31, N.34, F.35, K.51, 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, F.101 Ligands: OXY.3 22 PLIP interactions: 22 interactions with chain A, 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:F.97, A:F.97, A:L.100, A:F.101 Salt bridges: A:K.51, A:H.55, A:K.58 pi-Stacking: A:H.55, A:H.55 pi-Cation interactions: A:H.89 Metal complexes: A:H.89 HEM.4: 20 residues within 4Å: Chain B: 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, F.101, L.127 Ligands: OXY.6 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:F.24, B:F.35, B:F.35, B:K.58, B:V.59, B:L.62, B:L.62, B:M.63, B:L.83, B:Q.88, B:F.97, B:F.97, B:L.100, B:F.101, B:L.127 Salt bridges: B:K.58 pi-Stacking: B:H.55 Metal complexes: B:H.89

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

SO4.2: 4 residues within 4Å: Chain A: G.1, F.2, K.3, D.116 8 PLIP interactions: 8 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, A:S.119, A:S.119 SO4.5: 4 residues within 4Å: Chain B: G.1, F.2, K.3, D.116 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.1, B:F.2, B:K.3, B:D.116 Water bridges: B:G.1, B:Q.4, B:S.119

2 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 5 residues within 4Å: Chain A: F.21, F.35, H.55, V.59 Ligands: HEM.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.55 OXY.6: 5 residues within 4Å: Chain B: F.21, F.35, H.55, V.59 Ligands: HEM.4 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.55

1 x GOL: GLYCEROL(Non-functional Binders)

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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carey, L.M. et al., How nature tunes isoenzyme activity in the multifunctional catalytic globin dehaloperoxidase from Amphitrite ornata. Biochim Biophys Acta Proteins Proteom (2018)

Release Date

2018-03-21

Peptides

Dehaloperoxidase B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dehaloperoxidase B