SMTL ID : 6i8k.1

Dye type peroxidase Aa from Streptomyces lividans: 164 kGy structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: N.179, L.181, F.183, K.184, D.185, G.186, T.187, R.188, I.224, M.226, F.243, R.245, H.272, V.273, A.276, H.277, P.278, L.286, R.288, L.307, F.309, F.320, V.323, Q.324, L.327, L.332 28 PLIP interactions: 28 interactions with chain A, Hydrophobic interactions: A:L.181, A:F.183, A:I.224, A:F.243, A:F.243, A:V.273, A:A.276, A:L.286, A:L.307, A:F.309, A:F.309, A:F.320, A:V.323, A:L.327, A:L.332 Hydrogen bonds: A:D.185, A:G.186, A:T.187, A:R.188 Water bridges: A:R.188, A:R.245 Salt bridges: A:R.188, A:R.245, A:H.277, A:R.288 pi-Stacking: A:F.309 pi-Cation interactions: A:R.288 Metal complexes: A:H.272 HEM.2: 27 residues within 4Å: Chain B: N.179, L.181, F.183, K.184, D.185, G.186, T.187, R.188, I.224, M.226, F.243, R.245, H.272, V.273, A.276, H.277, P.278, L.286, R.288, L.307, F.309, F.320, V.323, Q.324, L.327, L.332, I.336 28 PLIP interactions: 28 interactions with chain B, Hydrophobic interactions: B:L.181, B:F.183, B:I.224, B:F.243, B:V.273, B:A.276, B:L.286, B:L.307, B:F.309, B:F.320, B:V.323, B:Q.324, B:L.327, B:L.332, B:I.336 Hydrogen bonds: B:D.185, B:D.185, B:G.186, B:T.187, B:R.188 Water bridges: B:R.188, B:R.245 Salt bridges: B:R.188, B:H.277, B:R.288 pi-Stacking: B:F.309 pi-Cation interactions: B:R.288 Metal complexes: B:H.272

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ebrahim, A. et al., Dose-resolved serial synchrotron and XFEL structures of radiation-sensitive metalloproteins. Iucrj (2019)

Release Date

2019-07-31

Peptides

Deferrochelatase/peroxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Deferrochelatase/peroxidase

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