- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-36-6-mer
- Ligands
- 36 x SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid(Non-covalent)(Post Translational Modification)
- 36 x CA: CALCIUM ION(Non-covalent)
CA.7: 3 residues within 4Å:- Chain A: S.213, E.216
- Chain E: E.48
4 PLIP interactions:2 interactions with chain E, 2 interactions with chain A- Metal complexes: E:E.48, E:E.48, A:S.213, A:E.216
CA.8: 3 residues within 4Å:- Chain A: E.48
- Chain B: S.213, E.216
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain A- Metal complexes: B:S.213, B:E.216, A:E.48, A:E.48
CA.9: 4 residues within 4Å:- Chain B: E.48
- Chain C: S.213, E.216
- Chain F: E.330
5 PLIP interactions:2 interactions with chain C, 1 interactions with chain F, 2 interactions with chain B- Metal complexes: C:S.213, C:E.216, F:E.330, B:E.48, B:E.48
CA.10: 4 residues within 4Å:- Chain C: E.48
- Chain D: S.213, E.216
- Chain I: E.330
4 PLIP interactions:1 interactions with chain I, 2 interactions with chain D, 1 interactions with chain C- Metal complexes: I:E.330, D:S.213, D:E.216, C:E.48
CA.11: 4 residues within 4Å:- Chain C: E.330
- Chain F: S.213, E.216
- Chain M: E.48
4 PLIP interactions:2 interactions with chain F, 2 interactions with chain M- Metal complexes: F:S.213, F:E.216, M:E.48, M:E.48
CA.12: 5 residues within 4Å:- Chain 6: E.330, R.332
- Chain D: E.48
- Chain E: S.213, E.216
3 PLIP interactions:1 interactions with chain E, 2 interactions with chain D- Metal complexes: E:S.213, D:E.48, D:E.48
CA.19: 3 residues within 4Å:- Chain H: S.213, E.216
- Chain L: E.48
4 PLIP interactions:2 interactions with chain L, 2 interactions with chain H- Metal complexes: L:E.48, L:E.48, H:S.213, H:E.216
CA.20: 3 residues within 4Å:- Chain H: E.48
- Chain I: S.213, E.216
4 PLIP interactions:2 interactions with chain I, 2 interactions with chain H- Metal complexes: I:S.213, I:E.216, H:E.48, H:E.48
CA.21: 4 residues within 4Å:- Chain I: E.48
- Chain J: S.213, E.216
- Chain M: E.330
5 PLIP interactions:2 interactions with chain J, 2 interactions with chain I, 1 interactions with chain M- Metal complexes: J:S.213, J:E.216, I:E.48, I:E.48, M:E.330
CA.22: 3 residues within 4Å:- Chain J: E.48
- Chain K: S.213, E.216
3 PLIP interactions:1 interactions with chain J, 2 interactions with chain K- Metal complexes: J:E.48, K:S.213, K:E.216
CA.23: 3 residues within 4Å:- Chain J: E.330
- Chain M: S.213, E.216
2 PLIP interactions:2 interactions with chain M- Metal complexes: M:S.213, M:E.216
CA.24: 3 residues within 4Å:- Chain K: E.48
- Chain L: S.213, E.216
3 PLIP interactions:2 interactions with chain K, 1 interactions with chain L- Metal complexes: K:E.48, K:E.48, L:S.213
CA.31: 3 residues within 4Å:- Chain O: S.213, E.216
- Chain S: E.48
4 PLIP interactions:2 interactions with chain S, 2 interactions with chain O- Metal complexes: S:E.48, S:E.48, O:S.213, O:E.216
CA.32: 3 residues within 4Å:- Chain O: E.48
- Chain P: S.213, E.216
4 PLIP interactions:2 interactions with chain O, 2 interactions with chain P- Metal complexes: O:E.48, O:E.48, P:S.213, P:E.216
CA.33: 4 residues within 4Å:- Chain P: E.48
- Chain Q: S.213, E.216
- Chain T: E.330
5 PLIP interactions:1 interactions with chain T, 2 interactions with chain Q, 2 interactions with chain P- Metal complexes: T:E.330, Q:S.213, Q:E.216, P:E.48, P:E.48
CA.34: 3 residues within 4Å:- Chain Q: E.48
- Chain R: S.213, E.216
3 PLIP interactions:2 interactions with chain R, 1 interactions with chain Q- Metal complexes: R:S.213, R:E.216, Q:E.48
CA.35: 3 residues within 4Å:- Chain Q: E.330
- Chain T: S.213, E.216
2 PLIP interactions:2 interactions with chain T- Metal complexes: T:S.213, T:E.216
CA.36: 3 residues within 4Å:- Chain R: E.48
- Chain S: S.213, E.216
3 PLIP interactions:1 interactions with chain S, 2 interactions with chain R- Metal complexes: S:S.213, R:E.48, R:E.48
CA.43: 3 residues within 4Å:- Chain V: S.213, E.216
- Chain Z: E.48
4 PLIP interactions:2 interactions with chain Z, 2 interactions with chain V- Metal complexes: Z:E.48, Z:E.48, V:S.213, V:E.216
CA.44: 3 residues within 4Å:- Chain V: E.48
- Chain W: S.213, E.216
4 PLIP interactions:2 interactions with chain W, 2 interactions with chain V- Metal complexes: W:S.213, W:E.216, V:E.48, V:E.48
CA.45: 4 residues within 4Å:- Chain 0: E.330
- Chain W: E.48
- Chain X: S.213, E.216
5 PLIP interactions:2 interactions with chain X, 1 interactions with chain 0, 2 interactions with chain W- Metal complexes: X:S.213, X:E.216, 0:E.330, W:E.48, W:E.48
CA.46: 4 residues within 4Å:- Chain P: E.330
- Chain X: E.48
- Chain Y: S.213, E.216
4 PLIP interactions:2 interactions with chain Y, 1 interactions with chain X, 1 interactions with chain P- Metal complexes: Y:S.213, Y:E.216, X:E.48, P:E.330
CA.47: 4 residues within 4Å:- Chain 0: S.213, E.216
- Chain T: E.48
- Chain X: E.330
4 PLIP interactions:2 interactions with chain 0, 2 interactions with chain T- Metal complexes: 0:S.213, 0:E.216, T:E.48, T:E.48
CA.48: 5 residues within 4Å:- Chain E: E.330, R.332
- Chain Y: E.48
- Chain Z: S.213, E.216
3 PLIP interactions:1 interactions with chain Z, 2 interactions with chain Y- Metal complexes: Z:S.213, Y:E.48, Y:E.48
CA.55: 3 residues within 4Å:- Chain 2: S.213, E.216
- Chain 6: E.48
4 PLIP interactions:2 interactions with chain 6, 2 interactions with chain 2- Metal complexes: 6:E.48, 6:E.48, 2:S.213, 2:E.216
CA.56: 3 residues within 4Å:- Chain 2: E.48
- Chain 3: S.213, E.216
4 PLIP interactions:2 interactions with chain 2, 2 interactions with chain 3- Metal complexes: 2:E.48, 2:E.48, 3:S.213, 3:E.216
CA.57: 4 residues within 4Å:- Chain 3: E.48
- Chain 4: S.213, E.216
- Chain 7: E.330
5 PLIP interactions:2 interactions with chain 4, 2 interactions with chain 3, 1 interactions with chain 7- Metal complexes: 4:S.213, 4:E.216, 3:E.48, 3:E.48, 7:E.330
CA.58: 4 residues within 4Å:- Chain 4: E.48
- Chain 5: S.213, E.216
- Chain a: E.330
4 PLIP interactions:2 interactions with chain 5, 1 interactions with chain a, 1 interactions with chain 4- Metal complexes: 5:S.213, 5:E.216, a:E.330, 4:E.48
CA.59: 4 residues within 4Å:- Chain 4: E.330
- Chain 7: S.213, E.216
- Chain e: E.48
4 PLIP interactions:2 interactions with chain 7, 2 interactions with chain e- Metal complexes: 7:S.213, 7:E.216, e:E.48, e:E.48
CA.60: 5 residues within 4Å:- Chain 5: E.48
- Chain 6: S.213, E.216
- Chain Z: E.330, R.332
3 PLIP interactions:1 interactions with chain 6, 2 interactions with chain 5- Metal complexes: 6:S.213, 5:E.48, 5:E.48
CA.67: 3 residues within 4Å:- Chain 9: S.213, E.216
- Chain d: E.48
4 PLIP interactions:2 interactions with chain 9, 2 interactions with chain d- Metal complexes: 9:S.213, 9:E.216, d:E.48, d:E.48
CA.68: 3 residues within 4Å:- Chain 9: E.48
- Chain a: S.213, E.216
4 PLIP interactions:2 interactions with chain a, 2 interactions with chain 9- Metal complexes: a:S.213, a:E.216, 9:E.48, 9:E.48
CA.69: 4 residues within 4Å:- Chain a: E.48
- Chain b: S.213, E.216
- Chain e: E.330
5 PLIP interactions:1 interactions with chain e, 2 interactions with chain a, 2 interactions with chain b- Metal complexes: e:E.330, a:E.48, a:E.48, b:S.213, b:E.216
CA.70: 3 residues within 4Å:- Chain b: E.48
- Chain c: S.213, E.216
3 PLIP interactions:1 interactions with chain b, 2 interactions with chain c- Metal complexes: b:E.48, c:S.213, c:E.216
CA.71: 3 residues within 4Å:- Chain b: E.330
- Chain e: S.213, E.216
2 PLIP interactions:2 interactions with chain e- Metal complexes: e:S.213, e:E.216
CA.72: 3 residues within 4Å:- Chain c: E.48
- Chain d: S.213, E.216
3 PLIP interactions:1 interactions with chain d, 2 interactions with chain c- Metal complexes: d:S.213, c:E.48, c:E.48
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hurdiss, D.L. et al., The Structure of an Infectious Human Polyomavirus and Its Interactions with Cellular Receptors. Structure (2018)
- Release Date
- 2018-05-02
- Peptides
- Capsid protein VP1: ABCDEFHIJKLMOPQRSTVWXYZ02345679abcde
Minor capsid protein VP2: GNU18f - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
1B
2C
3D
4E
5F
6H
1I
2J
3K
4L
5M
6O
1P
2Q
3R
4S
5T
6V
1W
2X
3Y
4Z
50
62
13
24
35
46
57
69
1a
2b
3c
4d
5e
6G
7N
7U
71
78
7f
7
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-36-6-mer
- Ligands
- 36 x SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid(Non-covalent)(Post Translational Modification)
- 36 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hurdiss, D.L. et al., The Structure of an Infectious Human Polyomavirus and Its Interactions with Cellular Receptors. Structure (2018)
- Release Date
- 2018-05-02
- Peptides
- Capsid protein VP1: ABCDEFHIJKLMOPQRSTVWXYZ02345679abcde
Minor capsid protein VP2: GNU18f - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
1B
2C
3D
4E
5F
6H
1I
2J
3K
4L
5M
6O
1P
2Q
3R
4S
5T
6V
1W
2X
3Y
4Z
50
62
13
24
35
46
57
69
1a
2b
3c
4d
5e
6G
7N
7U
71
78
7f
7