- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x ALA- ALA- TRP- LEU- PHE- GLU- ALA: Unknown peptide, probably from expression host(Non-covalent)
- 8 x K: POTASSIUM ION(Non-covalent)
K.2: 6 residues within 4Å:- Chain A: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:F.129, A:V.158, A:V.160, A:S.162
K.9: 6 residues within 4Å:- Chain B: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:F.129, B:V.158, B:V.160, B:S.162
K.16: 6 residues within 4Å:- Chain C: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:F.129, C:V.158, C:V.160, C:S.162
K.23: 6 residues within 4Å:- Chain D: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:F.129, D:V.158, D:V.160, D:S.162
K.30: 6 residues within 4Å:- Chain E: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:F.129, E:V.158, E:V.160, E:S.162
K.37: 6 residues within 4Å:- Chain F: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain F- Metal complexes: F:F.129, F:V.158, F:V.160, F:S.162
K.44: 6 residues within 4Å:- Chain G: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain G- Metal complexes: G:F.129, G:V.158, G:V.160, G:S.162
K.51: 6 residues within 4Å:- Chain H: N.64, D.126, F.129, V.158, V.160, S.162
4 PLIP interactions:4 interactions with chain H- Metal complexes: H:F.129, H:V.158, H:V.160, H:S.162
- 8 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 4 residues within 4Å:- Chain A: D.354, E.381, K.414
- Ligands: ATP.5
No protein-ligand interaction detected (PLIP)MG.10: 4 residues within 4Å:- Chain B: D.354, E.381, K.414
- Ligands: ATP.12
No protein-ligand interaction detected (PLIP)MG.17: 4 residues within 4Å:- Chain C: D.354, E.381, K.414
- Ligands: ATP.19
No protein-ligand interaction detected (PLIP)MG.24: 4 residues within 4Å:- Chain D: D.354, E.381, K.414
- Ligands: ATP.26
No protein-ligand interaction detected (PLIP)MG.31: 4 residues within 4Å:- Chain E: D.354, E.381, K.414
- Ligands: ATP.33
No protein-ligand interaction detected (PLIP)MG.38: 4 residues within 4Å:- Chain F: D.354, E.381, K.414
- Ligands: ATP.40
No protein-ligand interaction detected (PLIP)MG.45: 4 residues within 4Å:- Chain G: D.354, E.381, K.414
- Ligands: ATP.47
No protein-ligand interaction detected (PLIP)MG.52: 4 residues within 4Å:- Chain H: D.354, E.381, K.414
- Ligands: ATP.54
No protein-ligand interaction detected (PLIP)- 24 x COA: COENZYME A(Non-covalent)
COA.4: 19 residues within 4Å:- Chain A: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
18 PLIP interactions:18 interactions with chain A- Hydrogen bonds: A:D.17, A:N.63, A:N.63, A:N.64, A:G.130, A:T.131, A:T.131, A:G.132, A:R.134, A:E.136
- Water bridges: A:D.17, A:G.61, A:G.62, A:G.62, A:T.131, A:D.159, A:H.210
- Salt bridges: A:K.90
COA.6: 17 residues within 4Å:- Chain A: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Chain C: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Ligands: COA.7
18 PLIP interactions:9 interactions with chain A, 9 interactions with chain C- Hydrogen bonds: A:Y.256, A:G.380, A:S.415, C:K.276
- Water bridges: A:Y.256, A:N.359, A:R.384, A:K.394, C:H.240
- Salt bridges: A:H.378, A:R.384, C:H.240, C:K.241, C:K.246, C:K.246
- Hydrophobic interactions: C:L.317
- pi-Stacking: C:H.240, C:H.240
COA.7: 10 residues within 4Å:- Chain A: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Chain C: D.238, H.240
- Ligands: COA.6
8 PLIP interactions:7 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:K.170, A:K.170, A:F.194, A:G.391
- Water bridges: A:T.389
- Salt bridges: A:K.394, A:K.394, C:H.240
COA.11: 19 residues within 4Å:- Chain B: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
18 PLIP interactions:18 interactions with chain B- Hydrogen bonds: B:D.17, B:N.63, B:N.63, B:N.64, B:G.130, B:T.131, B:T.131, B:G.132, B:R.134, B:E.136
- Water bridges: B:D.17, B:G.61, B:G.62, B:G.62, B:T.131, B:D.159, B:H.210
- Salt bridges: B:K.90
COA.13: 17 residues within 4Å:- Chain B: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Chain D: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Ligands: COA.14
18 PLIP interactions:9 interactions with chain D, 9 interactions with chain B- Hydrophobic interactions: D:L.317
- Hydrogen bonds: D:K.276, B:Y.256, B:G.380, B:S.415
- Water bridges: D:H.240, B:Y.256, B:N.359, B:R.384, B:K.394
- Salt bridges: D:H.240, D:K.241, D:K.246, D:K.246, B:H.378, B:R.384
- pi-Stacking: D:H.240, D:H.240
COA.14: 10 residues within 4Å:- Chain B: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Chain D: D.238, H.240
- Ligands: COA.13
8 PLIP interactions:7 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:K.170, B:K.170, B:F.194, B:G.391
- Water bridges: B:T.389
- Salt bridges: B:K.394, B:K.394, D:H.240
COA.18: 19 residues within 4Å:- Chain C: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
18 PLIP interactions:18 interactions with chain C- Hydrogen bonds: C:D.17, C:N.63, C:N.63, C:N.64, C:G.130, C:T.131, C:T.131, C:G.132, C:R.134, C:E.136
- Water bridges: C:D.17, C:G.61, C:G.62, C:G.62, C:T.131, C:D.159, C:H.210
- Salt bridges: C:K.90
COA.20: 17 residues within 4Å:- Chain B: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Chain C: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Ligands: COA.21
18 PLIP interactions:9 interactions with chain C, 9 interactions with chain B- Hydrogen bonds: C:Y.256, C:G.380, C:S.415, B:K.276
- Water bridges: C:Y.256, C:N.359, C:R.384, C:K.394, B:H.240
- Salt bridges: C:H.378, C:R.384, B:H.240, B:K.241, B:K.246, B:K.246
- Hydrophobic interactions: B:L.317
- pi-Stacking: B:H.240, B:H.240
COA.21: 10 residues within 4Å:- Chain B: D.238, H.240
- Chain C: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Ligands: COA.20
8 PLIP interactions:7 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: C:K.170, C:K.170, C:F.194, C:G.391
- Water bridges: C:T.389
- Salt bridges: C:K.394, C:K.394, B:H.240
COA.25: 19 residues within 4Å:- Chain D: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
18 PLIP interactions:18 interactions with chain D- Hydrogen bonds: D:D.17, D:N.63, D:N.63, D:N.64, D:G.130, D:T.131, D:T.131, D:G.132, D:R.134, D:E.136
- Water bridges: D:D.17, D:G.61, D:G.62, D:G.62, D:T.131, D:D.159, D:H.210
- Salt bridges: D:K.90
COA.27: 17 residues within 4Å:- Chain A: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Chain D: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Ligands: COA.28
18 PLIP interactions:9 interactions with chain A, 9 interactions with chain D- Hydrophobic interactions: A:L.317
- Hydrogen bonds: A:K.276, D:Y.256, D:G.380, D:S.415
- Water bridges: A:H.240, D:Y.256, D:N.359, D:R.384, D:K.394
- Salt bridges: A:H.240, A:K.241, A:K.246, A:K.246, D:H.378, D:R.384
- pi-Stacking: A:H.240, A:H.240
COA.28: 10 residues within 4Å:- Chain A: D.238, H.240
- Chain D: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Ligands: COA.27
8 PLIP interactions:7 interactions with chain D, 1 interactions with chain A- Hydrogen bonds: D:K.170, D:K.170, D:F.194, D:G.391
- Water bridges: D:T.389
- Salt bridges: D:K.394, D:K.394, A:H.240
COA.32: 19 residues within 4Å:- Chain E: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
15 PLIP interactions:15 interactions with chain E- Hydrogen bonds: E:N.63, E:N.63, E:N.64, E:G.130, E:T.131, E:G.132, E:R.134, E:E.136
- Water bridges: E:D.17, E:G.61, E:G.62, E:G.62, E:T.131, E:H.210
- Salt bridges: E:K.90
COA.34: 17 residues within 4Å:- Chain E: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Chain G: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Ligands: COA.35
18 PLIP interactions:9 interactions with chain E, 9 interactions with chain G- Hydrogen bonds: E:G.380, E:S.415, G:K.276
- Water bridges: E:Y.256, E:Y.256, E:N.359, E:R.384, E:K.394, G:H.240
- Salt bridges: E:H.378, E:R.384, G:H.240, G:K.241, G:K.246, G:K.246
- Hydrophobic interactions: G:L.317
- pi-Stacking: G:H.240, G:H.240
COA.35: 10 residues within 4Å:- Chain E: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Chain G: D.238, H.240
- Ligands: COA.34
7 PLIP interactions:6 interactions with chain E, 1 interactions with chain G- Hydrogen bonds: E:K.170, E:K.170, E:F.194, E:G.391
- Salt bridges: E:K.394, E:K.394, G:H.240
COA.39: 19 residues within 4Å:- Chain F: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
15 PLIP interactions:15 interactions with chain F- Hydrogen bonds: F:N.63, F:N.63, F:N.64, F:G.130, F:T.131, F:G.132, F:R.134, F:E.136
- Water bridges: F:D.17, F:G.61, F:G.62, F:G.62, F:T.131, F:H.210
- Salt bridges: F:K.90
COA.41: 17 residues within 4Å:- Chain F: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Chain H: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Ligands: COA.42
18 PLIP interactions:9 interactions with chain F, 9 interactions with chain H- Hydrogen bonds: F:G.380, F:S.415, H:K.276
- Water bridges: F:Y.256, F:Y.256, F:N.359, F:R.384, F:K.394, H:H.240
- Salt bridges: F:H.378, F:R.384, H:H.240, H:K.241, H:K.246, H:K.246
- Hydrophobic interactions: H:L.317
- pi-Stacking: H:H.240, H:H.240
COA.42: 10 residues within 4Å:- Chain F: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Chain H: D.238, H.240
- Ligands: COA.41
7 PLIP interactions:6 interactions with chain F, 1 interactions with chain H- Hydrogen bonds: F:K.170, F:K.170, F:F.194, F:G.391
- Salt bridges: F:K.394, F:K.394, H:H.240
COA.46: 19 residues within 4Å:- Chain G: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
15 PLIP interactions:15 interactions with chain G- Hydrogen bonds: G:N.63, G:N.63, G:N.64, G:G.130, G:T.131, G:G.132, G:R.134, G:E.136
- Water bridges: G:D.17, G:G.61, G:G.62, G:G.62, G:T.131, G:H.210
- Salt bridges: G:K.90
COA.48: 17 residues within 4Å:- Chain F: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Chain G: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Ligands: COA.49
18 PLIP interactions:9 interactions with chain F, 9 interactions with chain G- Hydrophobic interactions: F:L.317
- Hydrogen bonds: F:K.276, G:G.380, G:S.415
- Water bridges: F:H.240, G:Y.256, G:Y.256, G:N.359, G:R.384, G:K.394
- Salt bridges: F:H.240, F:K.241, F:K.246, F:K.246, G:H.378, G:R.384
- pi-Stacking: F:H.240, F:H.240
COA.49: 10 residues within 4Å:- Chain F: D.238, H.240
- Chain G: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Ligands: COA.48
7 PLIP interactions:1 interactions with chain F, 6 interactions with chain G- Salt bridges: F:H.240, G:K.394, G:K.394
- Hydrogen bonds: G:K.170, G:K.170, G:F.194, G:G.391
COA.53: 19 residues within 4Å:- Chain H: K.14, D.17, L.31, M.32, G.62, N.63, N.64, D.67, K.90, F.129, G.130, T.131, G.132, L.133, R.134, G.135, E.136, Y.141, D.159
15 PLIP interactions:15 interactions with chain H- Hydrogen bonds: H:N.63, H:N.63, H:N.64, H:G.130, H:T.131, H:G.132, H:R.134, H:E.136
- Water bridges: H:D.17, H:G.61, H:G.62, H:G.62, H:T.131, H:H.210
- Salt bridges: H:K.90
COA.55: 17 residues within 4Å:- Chain E: H.240, K.241, G.242, K.246, L.274, K.276, I.295, L.317
- Chain H: Y.256, H.378, P.379, G.380, R.384, V.390, K.394, S.415
- Ligands: COA.56
18 PLIP interactions:9 interactions with chain H, 9 interactions with chain E- Hydrogen bonds: H:G.380, H:S.415, E:K.276
- Water bridges: H:Y.256, H:Y.256, H:N.359, H:R.384, H:K.394, E:H.240
- Salt bridges: H:H.378, H:R.384, E:H.240, E:K.241, E:K.246, E:K.246
- Hydrophobic interactions: E:L.317
- pi-Stacking: E:H.240, E:H.240
COA.56: 10 residues within 4Å:- Chain E: D.238, H.240
- Chain H: T.168, K.170, F.194, P.195, G.391, K.394, Y.395
- Ligands: COA.55
7 PLIP interactions:6 interactions with chain H, 1 interactions with chain E- Hydrogen bonds: H:K.170, H:K.170, H:F.194, H:G.391
- Salt bridges: H:K.394, H:K.394, E:H.240
- 8 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.5: 22 residues within 4Å:- Chain A: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Chain C: R.237, S.239, K.241
- Ligands: MG.3
15 PLIP interactions:12 interactions with chain A, 3 interactions with chain C- Hydrogen bonds: A:S.415, A:S.437, A:G.440, A:S.441, A:G.442, A:D.443, A:D.443, A:D.443, C:S.239
- Water bridges: A:K.414, A:K.414, A:D.443
- Salt bridges: A:K.414, C:K.241, C:K.241
ATP.12: 22 residues within 4Å:- Chain B: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Chain D: R.237, S.239, K.241
- Ligands: MG.10
15 PLIP interactions:12 interactions with chain B, 3 interactions with chain D- Hydrogen bonds: B:S.415, B:S.437, B:G.440, B:S.441, B:G.442, B:D.443, B:D.443, B:D.443, D:S.239
- Water bridges: B:K.414, B:K.414, B:D.443
- Salt bridges: B:K.414, D:K.241, D:K.241
ATP.19: 22 residues within 4Å:- Chain B: R.237, S.239, K.241
- Chain C: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Ligands: MG.17
15 PLIP interactions:12 interactions with chain C, 3 interactions with chain B- Hydrogen bonds: C:S.415, C:S.437, C:G.440, C:S.441, C:G.442, C:D.443, C:D.443, C:D.443, B:S.239
- Water bridges: C:K.414, C:K.414, C:D.443
- Salt bridges: C:K.414, B:K.241, B:K.241
ATP.26: 22 residues within 4Å:- Chain A: R.237, S.239, K.241
- Chain D: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Ligands: MG.24
15 PLIP interactions:3 interactions with chain A, 12 interactions with chain D- Hydrogen bonds: A:S.239, D:S.415, D:S.437, D:G.440, D:S.441, D:G.442, D:D.443, D:D.443, D:D.443
- Salt bridges: A:K.241, A:K.241, D:K.414
- Water bridges: D:K.414, D:K.414, D:D.443
ATP.33: 22 residues within 4Å:- Chain E: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Chain G: R.237, S.239, K.241
- Ligands: MG.31
16 PLIP interactions:13 interactions with chain E, 3 interactions with chain G- Hydrogen bonds: E:S.415, E:T.418, E:S.437, E:G.440, E:S.441, E:G.442, E:D.443, E:D.443, E:D.443, G:S.239
- Water bridges: E:K.414, E:K.414, E:H.470
- Salt bridges: E:K.414, G:K.241, G:K.241
ATP.40: 22 residues within 4Å:- Chain F: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Chain H: R.237, S.239, K.241
- Ligands: MG.38
16 PLIP interactions:13 interactions with chain F, 3 interactions with chain H- Hydrogen bonds: F:S.415, F:T.418, F:S.437, F:G.440, F:S.441, F:G.442, F:D.443, F:D.443, F:D.443, H:S.239
- Water bridges: F:K.414, F:K.414, F:H.470
- Salt bridges: F:K.414, H:K.241, H:K.241
ATP.47: 22 residues within 4Å:- Chain F: R.237, S.239, K.241
- Chain G: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Ligands: MG.45
16 PLIP interactions:13 interactions with chain G, 3 interactions with chain F- Hydrogen bonds: G:S.415, G:T.418, G:S.437, G:G.440, G:S.441, G:G.442, G:D.443, G:D.443, G:D.443, F:S.239
- Water bridges: G:K.414, G:K.414, G:H.470
- Salt bridges: G:K.414, F:K.241, F:K.241
ATP.54: 22 residues within 4Å:- Chain E: R.237, S.239, K.241
- Chain H: H.378, K.414, S.415, A.416, T.418, G.432, N.433, T.434, L.436, S.437, K.438, G.439, G.440, S.441, G.442, D.443, L.445, H.470
- Ligands: MG.52
16 PLIP interactions:3 interactions with chain E, 13 interactions with chain H- Hydrogen bonds: E:S.239, H:S.415, H:T.418, H:S.437, H:G.440, H:S.441, H:G.442, H:D.443, H:D.443, H:D.443
- Salt bridges: E:K.241, E:K.241, H:K.414
- Water bridges: H:K.414, H:K.414, H:H.470
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shumilin, I.A. et al., Identification of unknown protein function using metabolite cocktail screening. Structure (2012)
- Release Date
- 2011-06-22
- Peptides
- Putative uncharacterized protein: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x ALA- ALA- TRP- LEU- PHE- GLU- ALA: Unknown peptide, probably from expression host(Non-covalent)
- 8 x K: POTASSIUM ION(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 24 x COA: COENZYME A(Non-covalent)
- 8 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shumilin, I.A. et al., Identification of unknown protein function using metabolite cocktail screening. Structure (2012)
- Release Date
- 2011-06-22
- Peptides
- Putative uncharacterized protein: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A