SMTL ID : 3hq8.1

CcpA from G. sulfurreducens S134P/V135K variant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 22 residues within 4Å: Chain A: I.71, S.72, C.73, C.76, H.77, S.90, R.100, N.101, A.102, P.103, S.108, N.111, Q.114, F.115, W.116, V.131, E.136, M.137, I.178, E.182, R.268 Ligands: IMD.4 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:I.71, A:V.131, A:E.136, A:I.178 Hydrogen bonds: A:Q.114, A:W.116, A:R.268 Salt bridges: A:R.268 Metal complexes: A:H.77 HEM.2: 24 residues within 4Å: Chain A: W.116, G.218, C.219, C.222, H.223, F.234, F.236, G.237, V.238, F.267, R.268, A.269, P.270, L.272, Y.281, F.282, H.283, V.294, M.297, G.298, F.302, L.306, I.314, L.318 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:W.116, A:F.234, A:F.267, A:L.272, A:L.272, A:F.282, A:F.282, A:V.294, A:M.297, A:F.302, A:F.302, A:L.306, A:I.314, A:L.318 Hydrogen bonds: A:V.238, A:F.282, A:H.283 Salt bridges: A:H.283 Metal complexes: A:H.223 HEM.5: 19 residues within 4Å: Chain B: I.71, S.72, C.73, C.76, H.77, S.90, T.91, G.92, R.100, N.101, P.103, S.108, N.111, F.115, W.116, M.137, I.178, E.182 Ligands: IMD.8 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:I.71, B:P.103, B:I.178 Hydrogen bonds: B:N.111, B:Q.114, B:W.116 Salt bridges: B:R.268 Metal complexes: B:H.77 HEM.6: 22 residues within 4Å: Chain B: W.116, G.218, C.219, C.222, H.223, F.236, G.237, V.238, F.267, R.268, A.269, P.270, L.272, Y.281, F.282, H.283, V.294, M.297, G.298, F.302, L.306, I.314 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:F.236, B:V.238, B:A.269, B:L.272, B:L.272, B:F.282, B:F.282, B:V.294, B:M.297, B:F.302, B:F.302, B:L.306, B:I.314 Hydrogen bonds: B:F.236, B:V.238, B:F.282, B:H.283 Salt bridges: B:H.283 pi-Stacking: B:F.302 Metal complexes: B:H.223

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 3 residues within 4Å: Chain A: N.101, T.278, P.280 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.278, A:P.280, H2O.1, H2O.2 CA.7: 3 residues within 4Å: Chain B: N.101, T.278, P.280 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.278, B:P.280, H2O.5

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.4: 6 residues within 4Å: Chain A: H.77, V.131, Q.132, A.133, E.136 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) IMD.8: 4 residues within 4Å: Chain B: Q.132, P.134, E.136 Ligands: HEM.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoffmann, M. et al., CcpA from Geobacter sulfurreducens is a basic di-heme cytochrome c peroxidase. J.Mol.Biol. (2009)

Release Date

2009-09-22

Peptides

Cytochrome c551 peroxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytochrome c551 peroxidase