SMTL ID : 2zdp.1

Crystal structure of IsdI in complex with Cobalt protoporphyrin IX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: N.8, F.24, I.55 Ligands: COH.2 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain B: N.8, F.24, I.55 Ligands: COH.4 Ligand excluded by PLIP

2 x COH: PROTOPORPHYRIN IX CONTAINING CO(Non-covalent)

COH.2: 21 residues within 4Å: Chain A: A.6, N.8, R.23, F.24, R.27, Q.28, G.29, I.30, M.39, I.55, T.57, F.65, W.68, F.74, A.77, H.78, V.81, L.83, N.97, V.99 Ligands: CL.1 28 PLIP interactions: 28 interactions with chain A, Hydrophobic interactions: A:A.6, A:N.8, A:F.24, A:I.30, A:I.55, A:T.57, A:F.65, A:W.68, A:W.68, A:W.68, A:V.81, A:V.81, A:L.83, A:V.99 Hydrogen bonds: A:Q.28, A:Q.28, A:I.30, A:A.77 Water bridges: A:R.23, A:R.23, A:R.23, A:R.23, A:V.81 Salt bridges: A:R.23, A:R.27 pi-Stacking: A:F.24, A:F.74 Metal complexes: A:H.78 COH.4: 20 residues within 4Å: Chain B: N.8, R.23, F.24, R.27, Q.28, G.29, I.30, M.39, I.55, T.57, F.65, W.68, A.77, H.78, V.81, L.83, I.94, N.97, V.99 Ligands: CL.3 28 PLIP interactions: 28 interactions with chain B, Hydrophobic interactions: B:N.8, B:R.23, B:F.24, B:I.30, B:I.30, B:I.55, B:T.57, B:F.65, B:W.68, B:W.68, B:W.68, B:V.81, B:V.81, B:L.83, B:I.94, B:V.99 Hydrogen bonds: B:Q.28, B:Q.28, B:I.30 Water bridges: B:R.23, B:R.23, B:R.23, B:R.23 Salt bridges: B:R.23, B:R.27 pi-Stacking: B:F.24, B:F.74 Metal complexes: B:H.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, W.C. et al., Ruffling of Metalloporphyrins Bound to IsdG and IsdI, Two Heme-degrading Enzymes in Staphylococcus aureus. J.Biol.Chem. (2008)

Release Date

2008-08-19

Peptides

Heme-degrading monooxygenase isdI: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Heme-degrading monooxygenase isdI

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