- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
NA.2: 2 residues within 4Å:- Chain A: S.272, T.274
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.274, A:T.274
- Water bridges: A:N.306
NA.3: 1 residues within 4Å:- Chain A: S.540
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:S.540
NA.39: 2 residues within 4Å:- Chain B: S.272, T.274
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.272
- Water bridges: B:N.306
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 3 x CO3: CARBONATE ION(Non-functional Binders)
CO3.5: 4 residues within 4Å:- Chain A: Y.96, R.124, S.152
- Chain B: R.159
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:Y.96
- Water bridges: A:S.152, B:R.159
CO3.6: 6 residues within 4Å:- Chain A: T.558, T.559, K.560, V.561, G.578
- Ligands: PGE.29
3 PLIP interactions:3 interactions with chain A- Water bridges: A:T.558, A:K.560, A:K.560
CO3.36: 4 residues within 4Å:- Chain B: S.587, T.588, A.589, T.605
1 PLIP interactions:1 interactions with chain B- Water bridges: B:T.588
- 34 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 7 residues within 4Å:- Chain A: D.426, S.449, R.452, Y.476, G.527
- Chain C: Y.440
- Ligands: EDO.79
Ligand excluded by PLIPGOL.8: 4 residues within 4Å:- Chain A: Y.480, S.537, T.559, Y.562
Ligand excluded by PLIPGOL.9: 8 residues within 4Å:- Chain A: Q.314, N.315, Y.335
- Chain B: E.342, W.344, F.370
- Ligands: EDO.26, GOL.31
Ligand excluded by PLIPGOL.10: 5 residues within 4Å:- Chain A: K.252, Q.290
- Chain B: I.298, F.322
- Ligands: GOL.46
Ligand excluded by PLIPGOL.11: 5 residues within 4Å:- Chain A: T.522, Y.524, D.554, A.556
- Chain C: Q.489
Ligand excluded by PLIPGOL.12: 4 residues within 4Å:- Chain A: K.405, F.413, A.414
- Ligands: GOL.13
Ligand excluded by PLIPGOL.13: 7 residues within 4Å:- Chain A: K.405, E.436, G.437, K.462, G.463, D.486
- Ligands: GOL.12
Ligand excluded by PLIPGOL.14: 4 residues within 4Å:- Chain A: H.457, Y.460, E.485, L.508
Ligand excluded by PLIPGOL.15: 7 residues within 4Å:- Chain A: E.263, K.265, S.300, D.302, F.322, Y.324
- Ligands: GOL.74
Ligand excluded by PLIPGOL.16: 6 residues within 4Å:- Chain A: D.383, P.417
- Chain B: V.424, D.426
- Ligands: PO4.30, GOL.45
Ligand excluded by PLIPGOL.31: 9 residues within 4Å:- Chain A: N.315, Y.335, N.337
- Chain B: R.340, C.341, E.342, L.368, F.370
- Ligands: GOL.9
Ligand excluded by PLIPGOL.33: 9 residues within 4Å:- Chain A: E.342, W.344, F.370
- Chain C: Q.314, N.315, Y.335
- Ligands: EDO.35, EDO.80, EDO.93
Ligand excluded by PLIPGOL.34: 6 residues within 4Å:- Chain A: D.581, I.583
- Chain C: A.584, Y.599, Q.600
- Ligands: EDO.90
Ligand excluded by PLIPGOL.40: 3 residues within 4Å:- Chain B: S.285, Q.358, E.362
Ligand excluded by PLIPGOL.41: 4 residues within 4Å:- Chain A: P.410
- Chain B: Y.476, G.528, Y.529
Ligand excluded by PLIPGOL.42: 5 residues within 4Å:- Chain B: Q.314, N.315, Y.335
- Chain C: F.370
- Ligands: PEG.63
Ligand excluded by PLIPGOL.43: 5 residues within 4Å:- Chain B: K.252, Q.290
- Chain C: I.298, F.322
- Ligands: GOL.72
Ligand excluded by PLIPGOL.44: 6 residues within 4Å:- Chain B: I.349, R.351, P.375, D.377, Y.396, R.399
Ligand excluded by PLIPGOL.45: 8 residues within 4Å:- Chain A: Y.440
- Chain B: D.426, A.427, S.449, R.452, Y.476, G.527
- Ligands: GOL.16
Ligand excluded by PLIPGOL.46: 6 residues within 4Å:- Chain B: E.263, K.265, S.300, D.302, Y.324
- Ligands: GOL.10
Ligand excluded by PLIPGOL.47: 3 residues within 4Å:- Chain B: H.457, N.479, L.508
Ligand excluded by PLIPGOL.48: 5 residues within 4Å:- Chain B: V.561, Y.562, L.563, T.565
- Ligands: EDO.59
Ligand excluded by PLIPGOL.49: 5 residues within 4Å:- Chain B: A.584, Y.599, Q.600
- Chain C: D.581, I.583
Ligand excluded by PLIPGOL.68: 4 residues within 4Å:- Chain C: R.245, S.272, T.274, N.306
Ligand excluded by PLIPGOL.69: 6 residues within 4Å:- Chain C: F.413, E.436, G.437, K.462, G.463, D.486
Ligand excluded by PLIPGOL.70: 2 residues within 4Å:- Chain C: D.270, S.272
Ligand excluded by PLIPGOL.71: 5 residues within 4Å:- Chain C: A.509, C.510, K.511, N.542, T.544
Ligand excluded by PLIPGOL.72: 5 residues within 4Å:- Chain C: E.263, K.265, S.300, Y.324
- Ligands: GOL.43
Ligand excluded by PLIPGOL.73: 6 residues within 4Å:- Chain C: I.349, R.351, P.375, D.377, Y.396, R.399
Ligand excluded by PLIPGOL.74: 5 residues within 4Å:- Chain A: I.298, F.322
- Chain C: K.252, Q.290
- Ligands: GOL.15
Ligand excluded by PLIPGOL.75: 6 residues within 4Å:- Chain C: V.561, Y.562, L.563, T.565, V.579
- Ligands: GOL.77
Ligand excluded by PLIPGOL.76: 7 residues within 4Å:- Chain C: D.426, S.449, R.452, T.475, Y.476, G.527
- Ligands: EDO.57
Ligand excluded by PLIPGOL.77: 7 residues within 4Å:- Chain C: T.558, T.559, K.560, V.561, G.578, V.579
- Ligands: GOL.75
Ligand excluded by PLIPGOL.78: 3 residues within 4Å:- Chain A: Y.529
- Chain C: P.410, D.411
Ligand excluded by PLIP- 39 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.17: 5 residues within 4Å:- Chain A: A.509, C.510, K.511, N.542, T.544
Ligand excluded by PLIPEDO.18: 3 residues within 4Å:- Chain A: A.243, T.244, R.245
Ligand excluded by PLIPEDO.19: 1 residues within 4Å:- Ligands: EDO.21
Ligand excluded by PLIPEDO.20: 3 residues within 4Å:- Chain A: P.410, L.412
- Chain B: Y.524
Ligand excluded by PLIPEDO.21: 5 residues within 4Å:- Chain A: L.309, R.311, N.331, L.354
- Ligands: EDO.19
Ligand excluded by PLIPEDO.22: 3 residues within 4Å:- Chain A: D.186, G.187, A.188
Ligand excluded by PLIPEDO.23: 3 residues within 4Å:- Chain A: Y.476, Y.529, Y.530
Ligand excluded by PLIPEDO.24: 4 residues within 4Å:- Chain A: K.176, Y.190
- Chain B: S.167, D.168
Ligand excluded by PLIPEDO.25: 3 residues within 4Å:- Chain A: R.235
- Chain B: G.180, I.185
Ligand excluded by PLIPEDO.26: 3 residues within 4Å:- Chain A: S.285, Q.314
- Ligands: GOL.9
Ligand excluded by PLIPEDO.35: 8 residues within 4Å:- Chain A: R.340, C.341, E.342, L.368, F.370
- Chain C: N.315, N.337
- Ligands: GOL.33
Ligand excluded by PLIPEDO.50: 3 residues within 4Å:- Chain B: K.122, V.153, G.154
Ligand excluded by PLIPEDO.51: 3 residues within 4Å:- Chain B: A.243, T.244, R.245
Ligand excluded by PLIPEDO.52: 6 residues within 4Å:- Chain B: Y.396, R.399, R.401, H.431, D.434
- Ligands: EDO.58
Ligand excluded by PLIPEDO.53: 6 residues within 4Å:- Chain A: Q.489
- Chain B: T.522, T.523, Y.524, D.554, A.556
Ligand excluded by PLIPEDO.54: 7 residues within 4Å:- Chain B: T.52, R.54, Y.56, E.73, N.110, V.111, E.114
Ligand excluded by PLIPEDO.55: 4 residues within 4Å:- Chain A: D.198
- Chain B: R.235
- Chain C: Y.179, I.185
Ligand excluded by PLIPEDO.56: 4 residues within 4Å:- Chain B: P.410, L.412
- Chain C: Y.524
- Ligands: EDO.94
Ligand excluded by PLIPEDO.57: 1 residues within 4Å:- Ligands: GOL.76
Ligand excluded by PLIPEDO.58: 6 residues within 4Å:- Chain B: D.395, G.430, H.431, T.454, S.456
- Ligands: EDO.52
Ligand excluded by PLIPEDO.59: 5 residues within 4Å:- Chain B: T.558, T.559, K.560, V.561
- Ligands: GOL.48
Ligand excluded by PLIPEDO.60: 4 residues within 4Å:- Chain B: E.436, G.437, K.462, G.463
Ligand excluded by PLIPEDO.65: 4 residues within 4Å:- Chain B: R.230, K.231
- Chain C: R.235, N.258
Ligand excluded by PLIPEDO.79: 1 residues within 4Å:- Ligands: GOL.7
Ligand excluded by PLIPEDO.80: 4 residues within 4Å:- Chain A: W.344
- Chain C: S.285, Q.314
- Ligands: GOL.33
Ligand excluded by PLIPEDO.81: 4 residues within 4Å:- Chain C: Y.480, T.502, I.539
- Ligands: EDO.84
Ligand excluded by PLIPEDO.82: 2 residues within 4Å:- Chain C: D.216, T.244
Ligand excluded by PLIPEDO.83: 5 residues within 4Å:- Chain C: Y.396, R.399, R.401, H.431, D.434
Ligand excluded by PLIPEDO.84: 4 residues within 4Å:- Chain C: Y.480, S.537, Y.562
- Ligands: EDO.81
Ligand excluded by PLIPEDO.85: 5 residues within 4Å:- Chain C: H.334, Q.358, I.360, E.362
- Ligands: EDO.93
Ligand excluded by PLIPEDO.86: 3 residues within 4Å:- Chain C: R.351, W.379
- Ligands: EDO.87
Ligand excluded by PLIPEDO.87: 3 residues within 4Å:- Chain C: I.349
- Ligands: EDO.86, PEG.95
Ligand excluded by PLIPEDO.88: 2 residues within 4Å:- Chain C: F.322, Y.324
Ligand excluded by PLIPEDO.89: 6 residues within 4Å:- Chain B: Q.489
- Chain C: T.522, T.523, Y.524, D.554, A.556
Ligand excluded by PLIPEDO.90: 4 residues within 4Å:- Chain C: K.572, T.582, A.584
- Ligands: GOL.34
Ligand excluded by PLIPEDO.91: 2 residues within 4Å:- Chain C: T.279
- Ligands: PEG.95
Ligand excluded by PLIPEDO.92: 3 residues within 4Å:- Chain C: W.125, S.128, K.131
Ligand excluded by PLIPEDO.93: 6 residues within 4Å:- Chain A: F.370
- Chain C: W.288, Y.335, E.362
- Ligands: GOL.33, EDO.85
Ligand excluded by PLIPEDO.94: 3 residues within 4Å:- Chain C: Y.524, T.531
- Ligands: EDO.56
Ligand excluded by PLIP- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.27: 3 residues within 4Å:- Chain A: G.578, V.579
- Chain C: K.572
5 PLIP interactions:2 interactions with chain C, 3 interactions with chain A- Hydrogen bonds: C:K.572, C:K.572
- Water bridges: A:E.555, A:K.560, A:D.581
PEG.28: 8 residues within 4Å:- Chain A: S.102, F.103, N.104, V.117, H.118, D.119, D.120
- Chain C: S.92
8 PLIP interactions:7 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:N.104, A:H.118, A:D.119, A:D.120, A:D.120
- Water bridges: A:N.104, A:S.137, C:S.92
PEG.61: 4 residues within 4Å:- Chain B: L.309, V.329, N.331, R.351
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:N.331
- Water bridges: B:R.351, B:R.351, B:R.351
PEG.62: 3 residues within 4Å:- Chain B: K.176, Y.190
- Chain C: S.167
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.176
PEG.63: 11 residues within 4Å:- Chain B: N.315, L.316, D.317, Y.335, N.337
- Chain C: R.340, C.341, E.342, L.368, F.370
- Ligands: GOL.42
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:D.317, B:N.337, C:L.368
PEG.95: 7 residues within 4Å:- Chain C: L.309, R.311, V.329, N.331, L.354
- Ligands: EDO.87, EDO.91
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.311, C:N.331
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.30: 2 residues within 4Å:- Chain A: I.360
- Ligands: GOL.16
1 PLIP interactions:1 interactions with chain B- Water bridges: B:D.426
PO4.32: 6 residues within 4Å:- Chain A: R.233, R.295
- Chain B: R.233, R.295
- Chain C: R.233, R.295
9 PLIP interactions:3 interactions with chain C, 3 interactions with chain A, 3 interactions with chain B- Water bridges: C:R.295, A:R.295, B:R.295
- Salt bridges: C:R.233, C:R.295, A:R.233, A:R.295, B:R.233, B:R.295
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Greenfield, J. et al., Structure and tailspike glycosidase machinery of ORF212 from E. coli O157:H7 phage CBA120 (TSP3). Sci Rep (2019)
- Release Date
- 2019-06-05
- Peptides
- Tailspike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 3 x CO3: CARBONATE ION(Non-functional Binders)
- 34 x GOL: GLYCEROL(Non-functional Binders)
- 39 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Greenfield, J. et al., Structure and tailspike glycosidase machinery of ORF212 from E. coli O157:H7 phage CBA120 (TSP3). Sci Rep (2019)
- Release Date
- 2019-06-05
- Peptides
- Tailspike protein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C