- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-pentamer
- Ligands
- 3 x GAL- NGA- GAL- SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-4)-beta-D-galactopyranose(Non-functional Binders)(Non-covalent)
- 2 x GAL- NGA- GAL- SIA- SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-4)-[N-acetyl-alpha-neuraminic acid-(2-3)]beta-D-galactopyranose(Non-covalent)
GAL-NGA-GAL-SIA-SIA-SIA.4: 14 residues within 4Å:- Chain D: T.35, E.36, G.37, Q.39, Y.40, R.45, G.46, E.59, N.61, T.62, T.259, N.261, H.266
- Chain E: D.53
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:N.61, D:N.61
- Water bridges: D:E.59, D:E.59, D:N.61, D:N.61
GAL-NGA-GAL-SIA-SIA-SIA.5: 14 residues within 4Å:- Chain A: D.53
- Chain E: T.35, E.36, G.37, Q.39, Y.40, R.45, G.46, E.59, N.61, T.62, T.259, N.261, H.266
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:N.61, E:N.61
- Water bridges: E:I.47, E:E.59, E:E.59
- 8 x GOL: GLYCEROL(Non-covalent)(Non-functional Binders)
GOL.6: 2 residues within 4Å:- Chain A: K.152, D.168
2 PLIP interactions:2 interactions with chain A- Water bridges: A:K.162, A:K.162
GOL.7: 7 residues within 4Å:- Chain A: E.203, N.204, R.206, D.233, V.237, G.238, L.240
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.204, A:R.206, A:R.206, A:D.233, A:D.233, A:L.240
GOL.8: 3 residues within 4Å:- Chain B: K.154, E.155, E.156
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:E.155, B:E.156, B:E.156
- Water bridges: B:N.60
GOL.9: 7 residues within 4Å:- Chain B: E.203, N.204, R.206, D.233, V.237, G.238, L.240
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:E.203, B:R.206, B:R.206, B:D.233
GOL.10: 8 residues within 4Å:- Chain C: E.203, N.204, R.206, D.233, V.237, G.238, P.239, L.240
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.206, C:R.206
- Water bridges: C:E.203
GOL.11: 3 residues within 4Å:- Chain D: K.154, E.155, E.156
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:E.155, D:E.156, D:E.156
- Water bridges: D:N.60
GOL.12: 7 residues within 4Å:- Chain D: E.203, N.204, R.206, D.233, V.237, G.238, P.239
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:R.206, D:R.206
- Water bridges: D:E.203
GOL.13: 8 residues within 4Å:- Chain E: E.203, N.204, R.206, D.233, V.237, G.238, P.239, L.240
5 PLIP interactions:5 interactions with chain E- Hydrogen bonds: E:N.204, E:R.206, E:R.206, E:D.233, E:L.240
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Buch, M.H. et al., Structural and Functional Analysis of Murine Polyomavirus Capsid Proteins Establish the Determinants of Ligand Recognition and Pathogenicity. Plos Pathog. (2015)
- Release Date
- 2015-10-28
- Peptides
- VP1: ABCDE
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
E
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-pentamer
- Ligands
- 3 x GAL- NGA- GAL- SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-4)-beta-D-galactopyranose(Non-functional Binders)(Non-covalent)
- 2 x GAL- NGA- GAL- SIA- SIA- SIA: N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-4)-[N-acetyl-alpha-neuraminic acid-(2-3)]beta-D-galactopyranose(Non-covalent)
- 8 x GOL: GLYCEROL(Non-covalent)(Non-functional Binders)
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
- Buch, M.H. et al., Structural and Functional Analysis of Murine Polyomavirus Capsid Proteins Establish the Determinants of Ligand Recognition and Pathogenicity. Plos Pathog. (2015)
- Release Date
- 2015-10-28
- Peptides
- VP1: ABCDE
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
E