- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 10 x HEC: HEME C(Non-covalent)(Covalent)
HEC.3: 22 residues within 4Å:- Chain A: Y.62, N.63, P.65, D.74, V.75, T.78, R.80, T.81, L.92, A.95, C.96, C.99, K.100, C.186, H.187, Y.190, F.192, V.199, H.238, H.362
- Ligands: HEC.5, SO3.8
20 PLIP interactions:20 interactions with chain A,- Hydrophobic interactions: A:P.65, A:V.75, A:T.78, A:T.81, A:L.92, A:Y.190, A:Y.190, A:Y.190, A:F.192, A:V.199, A:H.238
- Hydrogen bonds: A:N.63, A:N.63, A:A.360
- Water bridges: A:Y.62, A:Y.62
- Salt bridges: A:R.80, A:H.238, A:H.362
- pi-Stacking: A:H.238
HEC.4: 22 residues within 4Å:- Chain A: H.23, Q.26, Y.27, W.30, L.132, G.133, C.134, C.137, H.138, F.145, G.148, P.150, L.152, R.175, Q.179, I.257, M.261, K.263, Y.272, T.273, H.275
- Ligands: HEC.5
16 PLIP interactions:16 interactions with chain A,- Hydrophobic interactions: A:H.23, A:Q.26, A:Y.27, A:W.30, A:L.132, A:F.145, A:L.152, A:I.257
- Hydrogen bonds: A:Q.179, A:T.273, A:T.273
- Salt bridges: A:R.175, A:K.263, A:K.263
- Metal complexes: A:H.138, A:H.275
HEC.5: 26 residues within 4Å:- Chain A: Q.36, P.65, R.66, G.67, H.68, F.70, A.71, D.74, C.99, K.100, L.132, C.137, V.182, C.183, C.186, H.187, C.256, I.257, H.260, M.261, I.277, G.278
- Ligands: CA.2, HEC.3, HEC.4, HEC.6
11 PLIP interactions:11 interactions with chain A,- Hydrophobic interactions: A:P.65, A:K.100, A:L.132, A:I.257, A:H.260, A:I.277
- Hydrogen bonds: A:Q.36, A:F.70, A:D.74
- Metal complexes: A:H.68, A:H.187
HEC.6: 23 residues within 4Å:- Chain A: P.65, H.187, E.240, Y.241, W.244, H.249, V.254, T.255, C.256, C.259, H.260, N.279, P.280, F.281, V.303, H.362, G.363, H.365, M.366, H.367
- Ligands: CA.2, HEC.5, HEC.7
12 PLIP interactions:12 interactions with chain A,- Hydrophobic interactions: A:H.187, A:E.240, A:W.244, A:W.244, A:H.249, A:P.280, A:F.281, A:H.362
- Hydrogen bonds: A:N.279
- Salt bridges: A:H.365
- Metal complexes: A:H.260, A:H.367
HEC.7: 19 residues within 4Å:- Chain A: I.248, H.249, N.252, V.254, D.258, F.281, T.287, C.288, C.291, H.292, V.302, R.306, M.366
- Chain B: I.248, H.292, Q.294
- Ligands: HEC.6, EDO.10, HEC.17
11 PLIP interactions:9 interactions with chain A, 2 interactions with chain B,- Hydrophobic interactions: A:N.252, A:V.254, A:D.258, A:F.281, A:V.302
- Water bridges: A:H.292
- Salt bridges: A:R.306, B:H.292
- Metal complexes: A:H.249, A:H.292
- Hydrogen bonds: B:Q.294
HEC.13: 23 residues within 4Å:- Chain B: Y.62, N.63, P.65, D.74, V.75, T.78, R.80, T.81, L.92, A.95, C.96, C.99, K.100, C.186, H.187, Y.190, F.192, V.199, H.238, A.360, H.362
- Ligands: HEC.15, SO3.19
22 PLIP interactions:22 interactions with chain B,- Hydrophobic interactions: B:P.65, B:P.65, B:V.75, B:T.78, B:T.81, B:L.92, B:Y.190, B:Y.190, B:Y.190, B:F.192, B:V.199, B:V.199, B:H.238
- Hydrogen bonds: B:N.63, B:N.63
- Water bridges: B:R.80, B:E.240, B:H.362
- Salt bridges: B:R.80, B:H.238, B:H.362
- pi-Stacking: B:H.238
HEC.14: 24 residues within 4Å:- Chain B: F.19, H.23, Q.26, Y.27, W.30, L.132, G.133, C.134, C.137, H.138, F.145, G.148, P.150, L.152, R.175, Q.179, V.182, I.257, M.261, K.263, Y.272, T.273, H.275
- Ligands: HEC.15
19 PLIP interactions:19 interactions with chain B,- Hydrophobic interactions: B:F.19, B:H.23, B:Q.26, B:Q.26, B:Y.27, B:W.30, B:L.132, B:F.145, B:L.152, B:V.182, B:I.257
- Hydrogen bonds: B:Q.179, B:T.273
- Water bridges: B:R.175
- Salt bridges: B:R.175, B:K.263, B:K.263
- Metal complexes: B:H.138, B:H.275
HEC.15: 27 residues within 4Å:- Chain B: Q.36, P.65, R.66, G.67, H.68, F.70, A.71, D.74, C.99, K.100, L.132, D.136, R.156, V.182, C.183, C.186, H.187, C.256, I.257, H.260, M.261, I.277, G.278
- Ligands: CA.12, HEC.13, HEC.14, HEC.16
12 PLIP interactions:12 interactions with chain B,- Hydrophobic interactions: B:P.65, B:K.100, B:L.132, B:I.257, B:H.260, B:I.277, B:I.277
- Hydrogen bonds: B:Q.36, B:F.70, B:D.74
- Metal complexes: B:H.68, B:H.187
HEC.16: 24 residues within 4Å:- Chain B: P.65, C.183, H.187, E.240, Y.241, W.244, H.249, V.254, T.255, C.256, C.259, H.260, N.279, P.280, F.281, V.303, H.362, G.363, H.365, M.366, H.367
- Ligands: CA.12, HEC.15, HEC.17
12 PLIP interactions:12 interactions with chain B,- Hydrophobic interactions: B:H.187, B:E.240, B:E.240, B:W.244, B:H.249, B:P.280, B:F.281
- Hydrogen bonds: B:N.279
- Water bridges: B:H.362
- Salt bridges: B:H.365
- Metal complexes: B:H.260, B:H.367
HEC.17: 20 residues within 4Å:- Chain A: I.248, H.292, Q.294
- Chain B: I.248, H.249, N.252, V.254, D.258, C.259, F.281, T.287, C.288, C.291, H.292, V.302, R.306, M.366
- Ligands: HEC.7, EDO.10, HEC.16
12 PLIP interactions:4 interactions with chain A, 8 interactions with chain B,- Hydrophobic interactions: A:I.248, B:N.252, B:V.254, B:F.281, B:V.302
- Hydrogen bonds: A:Q.294
- Water bridges: A:H.292, B:R.306
- Salt bridges: A:H.292, B:R.306
- Metal complexes: B:H.249, B:H.292
- 3 x SO3: SULFITE ION(Non-covalent)
SO3.8: 6 residues within 4Å:- Chain A: F.58, R.80, Y.190, Q.237, H.238
- Ligands: HEC.3
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.80, A:Y.190
- Water bridges: A:R.80
SO3.18: 6 residues within 4Å:- Chain B: F.281, D.282, N.283, F.284, A.285, K.296
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:N.283, B:F.284, B:A.285, B:K.296
SO3.19: 6 residues within 4Å:- Chain B: F.58, R.80, Y.190, Q.237, H.238
- Ligands: HEC.13
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.80, B:Y.190, B:H.238
- Water bridges: B:Q.237
- 4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.9: 6 residues within 4Å:- Chain A: F.281, D.282, N.283, F.284, A.285, K.296
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.282, A:F.284, A:A.285
EDO.10: 6 residues within 4Å:- Chain A: R.306, E.370
- Chain B: R.306, E.370
- Ligands: HEC.7, HEC.17
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:R.306, B:R.306, B:E.370
- Water bridges: A:E.370, A:E.370
EDO.20: 3 residues within 4Å:- Chain B: D.25, Q.26, K.270
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.25, B:D.25, B:Q.26, B:N.266, B:K.270
EDO.21: 5 residues within 4Å:- Chain A: R.387
- Chain B: D.385, T.388, K.389, R.392
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:K.389, B:R.392, B:R.392, A:R.387
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kemp, G.L. et al., Kinetic and thermodynamic resolution of the interactions between sulfite and the pentahaem cytochrome NrfA from Escherichia coli. Biochem.J. (2010)
- Release Date
- 2010-10-27
- Peptides
- Cytochrome c-552: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 10 x HEC: HEME C(Non-covalent)(Covalent)
- 3 x SO3: SULFITE ION(Non-covalent)
- 4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kemp, G.L. et al., Kinetic and thermodynamic resolution of the interactions between sulfite and the pentahaem cytochrome NrfA from Escherichia coli. Biochem.J. (2010)
- Release Date
- 2010-10-27
- Peptides
- Cytochrome c-552: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B