- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- hetero-6-6-6-6-mer
- Ligands
- 6 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)
- 12 x HEZ: HEXANE-1,6-DIOL(Non-covalent)
HEZ.2: 6 residues within 4Å:- Chain A: N.154, Y.189, G.190, S.191
- Chain E: N.154, G.190
3 PLIP interactions:1 interactions with chain E, 2 interactions with chain A- Hydrogen bonds: E:N.154, A:G.190
- Hydrophobic interactions: A:N.154
HEZ.3: 7 residues within 4Å:- Chain A: Y.175, Q.178
- Chain E: T.88, I.89, D.116, T.117
- Chain G: T.234
8 PLIP interactions:3 interactions with chain A, 5 interactions with chain E- Hydrogen bonds: A:Y.175, A:Q.178, E:T.88, E:T.88
- Water bridges: A:Q.178, E:D.116
- Hydrophobic interactions: E:I.89, E:T.117
HEZ.16: 4 residues within 4Å:- Chain E: N.154, Y.189, G.190, S.191
2 PLIP interactions:2 interactions with chain E- Hydrophobic interactions: E:N.154
- Hydrogen bonds: E:G.190
HEZ.17: 2 residues within 4Å:- Chain E: Y.175, Q.178
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:Y.175, E:Q.178
- Water bridges: E:Q.178
HEZ.30: 4 residues within 4Å:- Chain I: N.154, Y.189, G.190, S.191
2 PLIP interactions:2 interactions with chain I- Hydrophobic interactions: I:N.154
- Hydrogen bonds: I:G.190
HEZ.31: 2 residues within 4Å:- Chain I: Y.175, Q.178
3 PLIP interactions:3 interactions with chain I- Hydrogen bonds: I:Y.175, I:Q.178
- Water bridges: I:Q.178
HEZ.44: 6 residues within 4Å:- Chain I: N.154, G.190
- Chain M: N.154, Y.189, G.190, S.191
3 PLIP interactions:2 interactions with chain M, 1 interactions with chain I- Hydrophobic interactions: M:N.154
- Hydrogen bonds: M:G.190, I:N.154
HEZ.45: 7 residues within 4Å:- Chain I: T.88, I.89, D.116, T.117
- Chain K: T.234
- Chain M: Y.175, Q.178
6 PLIP interactions:3 interactions with chain I, 3 interactions with chain M- Hydrophobic interactions: I:I.89, I:T.117
- Hydrogen bonds: I:T.88, M:Y.175, M:Q.178
- Water bridges: M:Q.178
HEZ.58: 6 residues within 4Å:- Chain Q: N.154, Y.189, G.190, S.191
- Chain U: N.154, G.190
3 PLIP interactions:2 interactions with chain Q, 1 interactions with chain U- Hydrophobic interactions: Q:N.154
- Hydrogen bonds: Q:G.190, U:N.154
HEZ.59: 7 residues within 4Å:- Chain Q: Y.175, Q.178
- Chain U: T.88, I.89, D.116, T.117
- Chain W: T.234
7 PLIP interactions:3 interactions with chain Q, 4 interactions with chain U- Hydrogen bonds: Q:Y.175, Q:Q.178, U:T.88
- Water bridges: Q:Q.178, U:D.116
- Hydrophobic interactions: U:I.89, U:T.117
HEZ.72: 4 residues within 4Å:- Chain U: N.154, Y.189, G.190, S.191
2 PLIP interactions:2 interactions with chain U- Hydrophobic interactions: U:N.154
- Hydrogen bonds: U:G.190
HEZ.73: 2 residues within 4Å:- Chain U: Y.175, Q.178
3 PLIP interactions:3 interactions with chain U- Hydrogen bonds: U:Y.175, U:Q.178
- Water bridges: U:Q.178
- 6 x NA: SODIUM ION(Non-functional Binders)
NA.4: 4 residues within 4Å:- Chain A: T.26, A.27, S.29, N.68
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.29, A:N.68, A:N.68
NA.18: 4 residues within 4Å:- Chain E: T.26, A.27, S.29, N.68
4 PLIP interactions:4 interactions with chain E- Hydrogen bonds: E:T.26, E:S.29, E:S.29, E:N.68
NA.32: 4 residues within 4Å:- Chain I: T.26, A.27, S.29, N.68
4 PLIP interactions:4 interactions with chain I- Hydrogen bonds: I:T.26, I:S.29, I:N.68, I:N.68
NA.46: 4 residues within 4Å:- Chain M: T.26, A.27, S.29, N.68
4 PLIP interactions:4 interactions with chain M- Hydrogen bonds: M:T.26, M:S.29, M:S.29, M:N.68
NA.60: 4 residues within 4Å:- Chain Q: T.26, A.27, S.29, N.68
3 PLIP interactions:3 interactions with chain Q- Hydrogen bonds: Q:A.27, Q:S.29, Q:N.68
NA.74: 4 residues within 4Å:- Chain U: T.26, A.27, S.29, N.68
3 PLIP interactions:3 interactions with chain U- Hydrogen bonds: U:T.26, U:S.29, U:N.68
- 30 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
CA.5: 4 residues within 4Å:- Chain A: T.33, S.34, S.58, I.61
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:T.33, A:S.34, A:S.58, A:I.61, H2O.10, H2O.102
CA.6: 4 residues within 4Å:- Chain A: V.41, L.44
- Chain D: K.63, A.65
5 PLIP interactions:2 interactions with chain D, 1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: D:K.63, D:A.65, A:L.44, H2O.6, H2O.6
CA.7: 4 residues within 4Å:- Chain A: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:V.246, A:N.248, H2O.6, H2O.6
CA.11: 1 residues within 4Å:- Chain B: E.55
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:E.55, H2O.15
CA.13: 2 residues within 4Å:- Chain G: T.4
- Ligands: CA.27
No protein-ligand interaction detected (PLIP)CA.19: 4 residues within 4Å:- Chain E: T.33, S.34, S.58, I.61
5 PLIP interactions:4 interactions with chain E, 1 Ligand-Water interactions- Metal complexes: E:T.33, E:S.34, E:S.58, E:I.61, H2O.40
CA.20: 4 residues within 4Å:- Chain E: V.41, L.44
- Chain H: K.63, A.65
5 PLIP interactions:2 interactions with chain H, 1 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: H:K.63, H:A.65, E:L.44, H2O.36, H2O.36
CA.21: 4 residues within 4Å:- Chain E: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: E:V.246, E:N.248, H2O.36, H2O.37
CA.25: 1 residues within 4Å:- Chain F: E.55
2 PLIP interactions:1 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: F:E.55, H2O.46
CA.27: 1 residues within 4Å:- Ligands: CA.13
No protein-ligand interaction detected (PLIP)CA.33: 4 residues within 4Å:- Chain I: T.33, S.34, S.58, I.61
5 PLIP interactions:4 interactions with chain I, 1 Ligand-Water interactions- Metal complexes: I:T.33, I:S.34, I:S.58, I:I.61, H2O.70
CA.34: 4 residues within 4Å:- Chain I: V.41, L.44
- Chain L: K.63, A.65
5 PLIP interactions:2 interactions with chain L, 1 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: L:K.63, L:A.65, I:L.44, H2O.66, H2O.66
CA.35: 4 residues within 4Å:- Chain I: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: I:V.246, I:N.248, H2O.67, H2O.67
CA.39: 1 residues within 4Å:- Chain J: E.55
2 PLIP interactions:1 interactions with chain J, 1 Ligand-Water interactions- Metal complexes: J:E.55, H2O.76
CA.41: 1 residues within 4Å:- Ligands: CA.55
No protein-ligand interaction detected (PLIP)CA.47: 4 residues within 4Å:- Chain M: T.33, S.34, S.58, I.61
6 PLIP interactions:4 interactions with chain M, 2 Ligand-Water interactions- Metal complexes: M:T.33, M:S.34, M:S.58, M:I.61, H2O.100, H2O.132
CA.48: 4 residues within 4Å:- Chain M: V.41, L.44
- Chain P: K.63, A.65
5 PLIP interactions:2 interactions with chain P, 1 interactions with chain M, 2 Ligand-Water interactions- Metal complexes: P:K.63, P:A.65, M:L.44, H2O.96, H2O.97
CA.49: 4 residues within 4Å:- Chain M: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain M, 2 Ligand-Water interactions- Metal complexes: M:V.246, M:N.248, H2O.97, H2O.97
CA.53: 1 residues within 4Å:- Chain N: E.55
2 PLIP interactions:1 interactions with chain N, 1 Ligand-Water interactions- Metal complexes: N:E.55, H2O.106
CA.55: 2 residues within 4Å:- Chain K: T.4
- Ligands: CA.41
No protein-ligand interaction detected (PLIP)CA.61: 4 residues within 4Å:- Chain Q: T.33, S.34, S.58, I.61
6 PLIP interactions:4 interactions with chain Q, 2 Ligand-Water interactions- Metal complexes: Q:T.33, Q:S.34, Q:S.58, Q:I.61, H2O.12, H2O.130
CA.62: 4 residues within 4Å:- Chain Q: V.41, L.44
- Chain T: K.63, A.65
5 PLIP interactions:1 interactions with chain Q, 2 interactions with chain T, 2 Ligand-Water interactions- Metal complexes: Q:L.44, T:K.63, T:A.65, H2O.127, H2O.127
CA.63: 4 residues within 4Å:- Chain Q: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain Q, 2 Ligand-Water interactions- Metal complexes: Q:V.246, Q:N.248, H2O.127, H2O.127
CA.67: 1 residues within 4Å:- Chain R: E.55
2 PLIP interactions:1 interactions with chain R, 1 Ligand-Water interactions- Metal complexes: R:E.55, H2O.136
CA.69: 2 residues within 4Å:- Chain W: T.4
- Ligands: CA.83
No protein-ligand interaction detected (PLIP)CA.75: 4 residues within 4Å:- Chain U: T.33, S.34, S.58, I.61
5 PLIP interactions:4 interactions with chain U, 1 Ligand-Water interactions- Metal complexes: U:T.33, U:S.34, U:S.58, U:I.61, H2O.160
CA.76: 4 residues within 4Å:- Chain U: V.41, L.44
- Chain X: K.63, A.65
5 PLIP interactions:2 interactions with chain X, 1 interactions with chain U, 2 Ligand-Water interactions- Metal complexes: X:K.63, X:A.65, U:L.44, H2O.157, H2O.157
CA.77: 4 residues within 4Å:- Chain U: N.94, W.172, V.246, N.248
4 PLIP interactions:2 interactions with chain U, 2 Ligand-Water interactions- Metal complexes: U:V.246, U:N.248, H2O.157, H2O.157
CA.81: 1 residues within 4Å:- Chain V: E.55
2 PLIP interactions:1 interactions with chain V, 1 Ligand-Water interactions- Metal complexes: V:E.55, H2O.166
CA.83: 1 residues within 4Å:- Ligands: CA.69
No protein-ligand interaction detected (PLIP)- 30 x CL: CHLORIDE ION(Non-functional Binders)
CL.8: 5 residues within 4Å:- Chain A: N.248, E.249
- Chain E: T.141, E.142, K.258
Ligand excluded by PLIPCL.9: 2 residues within 4Å:- Chain A: R.245
- Chain E: R.260
Ligand excluded by PLIPCL.10: 4 residues within 4Å:- Chain A: V.299, E.300, T.304
- Chain C: K.92
Ligand excluded by PLIPCL.12: 3 residues within 4Å:- Chain B: D.88, G.151, E.152
Ligand excluded by PLIPCL.14: 2 residues within 4Å:- Chain C: T.59, G.60
Ligand excluded by PLIPCL.22: 2 residues within 4Å:- Chain E: N.248, E.249
Ligand excluded by PLIPCL.23: 1 residues within 4Å:- Chain E: R.245
Ligand excluded by PLIPCL.24: 4 residues within 4Å:- Chain E: V.299, E.300, T.304
- Chain G: K.92
Ligand excluded by PLIPCL.26: 3 residues within 4Å:- Chain F: D.88, G.151, E.152
Ligand excluded by PLIPCL.28: 2 residues within 4Å:- Chain G: T.59, G.60
Ligand excluded by PLIPCL.36: 2 residues within 4Å:- Chain I: N.248, E.249
Ligand excluded by PLIPCL.37: 1 residues within 4Å:- Chain I: R.245
Ligand excluded by PLIPCL.38: 4 residues within 4Å:- Chain I: V.299, E.300, T.304
- Chain K: K.92
Ligand excluded by PLIPCL.40: 3 residues within 4Å:- Chain J: D.88, G.151, E.152
Ligand excluded by PLIPCL.42: 2 residues within 4Å:- Chain K: T.59, G.60
Ligand excluded by PLIPCL.50: 5 residues within 4Å:- Chain I: T.141, E.142, K.258
- Chain M: N.248, E.249
Ligand excluded by PLIPCL.51: 2 residues within 4Å:- Chain I: R.260
- Chain M: R.245
Ligand excluded by PLIPCL.52: 4 residues within 4Å:- Chain M: V.299, E.300, T.304
- Chain O: K.92
Ligand excluded by PLIPCL.54: 3 residues within 4Å:- Chain N: D.88, G.151, E.152
Ligand excluded by PLIPCL.56: 2 residues within 4Å:- Chain O: T.59, G.60
Ligand excluded by PLIPCL.64: 5 residues within 4Å:- Chain Q: N.248, E.249
- Chain U: T.141, E.142, K.258
Ligand excluded by PLIPCL.65: 2 residues within 4Å:- Chain Q: R.245
- Chain U: R.260
Ligand excluded by PLIPCL.66: 4 residues within 4Å:- Chain Q: V.299, E.300, T.304
- Chain S: K.92
Ligand excluded by PLIPCL.68: 3 residues within 4Å:- Chain R: D.88, G.151, E.152
Ligand excluded by PLIPCL.70: 2 residues within 4Å:- Chain S: T.59, G.60
Ligand excluded by PLIPCL.78: 2 residues within 4Å:- Chain U: N.248, E.249
Ligand excluded by PLIPCL.79: 1 residues within 4Å:- Chain U: R.245
Ligand excluded by PLIPCL.80: 4 residues within 4Å:- Chain U: V.299, E.300, T.304
- Chain W: K.92
Ligand excluded by PLIPCL.82: 3 residues within 4Å:- Chain V: D.88, G.151, E.152
Ligand excluded by PLIPCL.84: 2 residues within 4Å:- Chain W: T.59, G.60
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zocher, G. et al., A sialic Acid binding site in a human picornavirus. Plos Pathog. (2014)
- Release Date
- 2014-11-05
- Peptides
- Coxsackievirus capsid protein VP1: AEIMQU
Coxsackievirus capsid protein VP2: BFJNRV
Coxsackievirus capsid protein VP3: CGKOSW
Coxsackievirus capsid protein VP4: DHLPTX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
1E
1I
1M
1Q
1U
1B
2F
2J
2N
2R
2V
2C
3G
3K
3O
3S
3W
3D
4H
4L
4P
4T
4X
4
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- hetero-6-6-6-6-mer
- Ligands
- 6 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)
- 12 x HEZ: HEXANE-1,6-DIOL(Non-covalent)
- 6 x NA: SODIUM ION(Non-functional Binders)
- 30 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)
- 30 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zocher, G. et al., A sialic Acid binding site in a human picornavirus. Plos Pathog. (2014)
- Release Date
- 2014-11-05
- Peptides
- Coxsackievirus capsid protein VP1: AEIMQU
Coxsackievirus capsid protein VP2: BFJNRV
Coxsackievirus capsid protein VP3: CGKOSW
Coxsackievirus capsid protein VP4: DHLPTX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
1E
1I
1M
1Q
1U
1B
2F
2J
2N
2R
2V
2C
3G
3K
3O
3S
3W
3D
4H
4L
4P
4T
4X
4