SMTL ID : 5gt2.1 (1 other biounit)

Crystal Structure and Biochemical Features of dye-decolorizing peroxidase YfeX from Escherichia coli O157

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: D.137, F.141, V.142, D.143, G.144, T.145, E.146, Q.174, W.176, H.178, R.197, H.215, L.216, V.219, D.220, I.230, R.232, L.246, F.248, Q.261, L.262, M.265, M.276, T.280 23 PLIP interactions: 22 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:F.141, A:W.176, A:L.216, A:V.219, A:I.230, A:L.246, A:F.248, A:F.248, A:L.262, A:T.280 Hydrogen bonds: A:D.143, A:G.144, A:T.145, A:E.146 Water bridges: A:R.197, A:K.229, A:K.229 Salt bridges: A:K.229, A:R.232 pi-Stacking: A:F.248 pi-Cation interactions: A:R.232 Metal complexes: A:H.215, H2O.7 HEM.2: 25 residues within 4Å: Chain B: D.137, F.141, V.142, D.143, G.144, T.145, E.146, Q.174, W.176, H.178, I.195, R.197, H.215, V.219, D.220, K.229, I.230, R.232, L.246, F.248, Q.261, L.262, M.265, M.276, T.280 24 PLIP interactions: 24 interactions with chain B, Hydrophobic interactions: B:F.141, B:W.176, B:W.176, B:I.195, B:V.219, B:V.219, B:I.230, B:L.246, B:F.248, B:F.248, B:F.248, B:L.262, B:T.280 Hydrogen bonds: B:G.144, B:T.145, B:E.146 Water bridges: B:R.197, B:K.229 Salt bridges: B:K.229, B:R.232 pi-Stacking: B:H.215, B:F.248 pi-Cation interactions: B:R.232 Metal complexes: B:H.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, X. et al., Crystal structure and biochemical features of dye-decolorizing peroxidase YfeX from Escherichia coli O157 Asp(143) and Arg(232) play divergent roles toward different substrates. Biochem. Biophys. Res. Commun. (2017)

Release Date

2017-02-08

Peptides

Probable deferrochelatase/peroxidase YfeX: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Probable deferrochelatase/peroxidase YfeX

Related Entries With Identical Sequence