SMTL ID : 1kss.1

Crystal Structure of His505Ala Mutant Flavocytochrome c3 from Shewanella frigidimarina

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 5 residues within 4Å: Chain A: T.506, M.507, G.508, E.534, T.536 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.536

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

HEM.2: 11 residues within 4Å: Chain A: H.8, V.9, C.14, C.17, H.18, L.24, S.73, A.74, H.75, Y.298 Ligands: HEM.3 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:H.8, A:V.9, A:L.24, A:Y.298 Hydrogen bonds: A:A.74, A:H.75 Water bridges: A:S.73, A:Y.298 Metal complexes: A:H.18, A:H.75 HEM.3: 15 residues within 4Å: Chain A: L.4, F.7, H.8, Q.12, S.16, C.17, Q.35, C.36, C.39, H.40, H.72, P.93, Y.94 Ligands: HEM.2, HEM.4 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:L.4, A:L.4, A:H.72 Hydrogen bonds: A:Y.94 Water bridges: A:H.40 Metal complexes: A:H.8, A:H.40 HEM.4: 19 residues within 4Å: Chain A: H.40, L.43, V.46, T.50, H.52, A.57, H.58, V.66, A.67, C.68, C.71, H.72, V.80, C.82, F.90, N.91, M.92 Ligands: HEM.3, HEM.5 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:H.40, A:L.43, A:V.46, A:T.50, A:A.57, A:V.66, A:V.80, A:F.90, A:M.92 Hydrogen bonds: A:N.91 Water bridges: A:T.49, A:T.50, A:T.50 Salt bridges: A:H.52 Metal complexes: A:H.58, A:H.72 HEM.5: 19 residues within 4Å: Chain A: H.54, Y.55, N.56, S.60, H.61, F.62, C.82, S.84, C.85, H.86, F.88, L.167, Q.338, V.374, K.431, K.434, Y.435, L.438 Ligands: HEM.4 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Y.55, A:F.62, A:F.62, A:F.88, A:F.88, A:L.167, A:V.374, A:V.374, A:Y.435, A:L.438 Water bridges: A:M.375, A:K.431, A:K.431, A:K.431 Salt bridges: A:K.431, A:K.434 Metal complexes: A:H.61, A:H.86

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.6: 39 residues within 4Å: Chain A: V.132, G.133, S.134, G.135, G.136, A.137, E.156, K.157, E.158, G.162, G.163, N.164, A.165, L.167, A.168, A.169, G.170, G.171, V.253, T.276, R.277, G.278, A.312, T.313, G.314, N.337, Q.338, D.344, M.375, H.504, G.533, E.534, R.544, G.547, N.548, A.549, I.550, I.553 Ligands: FUM.7 33 PLIP interactions: 33 interactions with chain A Hydrophobic interactions: A:N.164, A:L.167 Hydrogen bonds: A:G.136, A:A.137, A:K.157, A:G.162, A:G.163, A:N.164, A:N.164, A:A.165, A:A.169, A:G.170, A:G.171, A:G.171, A:G.278, A:G.278, A:G.314, A:Q.338, A:E.534, A:R.544, A:G.547, A:A.549, A:I.550 Water bridges: A:G.135, A:G.135, A:G.315, A:D.344, A:E.534, A:E.534, A:E.534, A:V.535, A:R.544 pi-Cation interactions: A:H.504

1 x FUM: FUMARIC ACID(Non-covalent)

FUM.7: 13 residues within 4Å: Chain A: A.169, G.170, M.236, H.365, M.375, T.377, E.378, R.402, H.504, R.544, G.546, G.547 Ligands: FAD.6 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.169, A:G.170, A:T.377, A:E.378, A:G.547 Salt bridges: A:H.365, A:R.402, A:R.402, A:H.504, A:R.544

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pankhurst, K.L. et al., Role of His505 in the soluble fumarate reductase from Shewanella frigidimarina. Biochemistry (2002)

Release Date

2002-08-14

Peptides

flavocytochrome c: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

flavocytochrome c