- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 15 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 8 residues within 4Å:- Chain A: L.43, E.44, A.45, I.291, A.293
- Chain C: H.428, T.429, T.430
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:E.44, A:A.45, A:I.291, A:A.293
GOL.3: 7 residues within 4Å:- Chain A: R.80, A.81, C.82, A.116, E.118, R.252
- Chain B: L.264
7 PLIP interactions:4 interactions with chain A, 3 interactions with chain B- Hydrogen bonds: A:C.82, A:C.82, A:E.118, A:R.252
- Water bridges: B:R.256, B:R.256, B:R.256
GOL.4: 9 residues within 4Å:- Chain A: T.9, A.10, P.11, H.317, P.319
- Chain C: F.380, V.386, T.387
- Ligands: GOL.34
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: C:T.387, A:P.319
- Water bridges: C:V.386, C:A.388
GOL.5: 5 residues within 4Å:- Chain A: A.362, P.363, G.364, P.382, G.383
1 PLIP interactions:1 interactions with chain A- Water bridges: A:G.364
GOL.6: 8 residues within 4Å:- Chain A: D.259, D.261, D.262, P.263
- Chain C: K.110, Q.111, P.114
- Ligands: PEG.11
4 PLIP interactions:1 interactions with chain C, 3 interactions with chain A- Hydrogen bonds: C:Q.111, A:D.262
- Water bridges: A:H.125, A:D.262
GOL.7: 3 residues within 4Å:- Chain A: S.100, Y.101, Y.108
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.100, A:S.100
- Water bridges: A:Y.101, A:Y.101
GOL.16: 9 residues within 4Å:- Chain B: T.347, G.348, P.355, A.356, L.357
- Chain C: R.217, H.308, T.311, T.312
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain C- Hydrogen bonds: B:T.347, B:T.347, C:R.217, C:T.311
GOL.17: 6 residues within 4Å:- Chain B: A.99, S.100, F.102, N.103, P.121, F.123
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:F.102, B:F.102
GOL.18: 3 residues within 4Å:- Chain B: S.100, Y.101, Y.108
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:S.100
GOL.29: 2 residues within 4Å:- Chain C: R.342
- Ligands: GOL.30
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:R.342
GOL.30: 5 residues within 4Å:- Chain C: R.342, A.362, P.363, G.364
- Ligands: GOL.29
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:R.342, C:R.342, C:G.383
- Water bridges: C:G.364
GOL.31: 5 residues within 4Å:- Chain B: K.110, Q.111, P.114
- Chain C: D.261, D.262
4 PLIP interactions:4 interactions with chain C- Water bridges: C:G.124, C:D.259, C:D.261, C:D.262
GOL.32: 9 residues within 4Å:- Chain A: R.217, H.308, T.311, T.312
- Chain C: T.347, G.348, P.355, A.356, L.357
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:R.217, A:T.311, C:P.355
- Water bridges: A:R.217
GOL.33: 3 residues within 4Å:- Chain C: S.100, Y.101, Y.108
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.100
- Water bridges: C:Y.101
GOL.34: 6 residues within 4Å:- Chain A: S.313, D.314
- Chain C: V.386, T.387, A.388
- Ligands: GOL.4
8 PLIP interactions:4 interactions with chain A, 4 interactions with chain C- Hydrogen bonds: A:S.313, A:D.314, C:V.386, C:T.387, C:A.388
- Water bridges: A:S.313, A:H.317, C:A.388
- 3 x NA: SODIUM ION(Non-functional Binders)
NA.8: 4 residues within 4Å:- Chain A: N.88, A.89, D.136, T.137
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.136, A:D.136
NA.19: 4 residues within 4Å:- Chain B: N.88, A.89, D.136, T.137
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:N.88, B:D.136
- Water bridges: B:S.91
NA.35: 4 residues within 4Å:- Chain C: N.88, A.89, D.136, T.137
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:N.88, C:D.136
- 7 x ACT: ACETATE ION(Non-functional Binders)
ACT.9: 5 residues within 4Å:- Chain A: Y.90, S.91, S.92, D.136, V.138
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:V.138
- Hydrogen bonds: A:S.91
ACT.10: 3 residues within 4Å:- Chain A: T.421, G.422, V.423
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:G.422
- Water bridges: A:F.420, A:F.420, A:V.423
ACT.20: 3 residues within 4Å:- Chain B: Y.90, S.92, V.138
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:Y.90, B:V.138
- Water bridges: B:S.91
ACT.21: 3 residues within 4Å:- Chain B: E.52, Y.90, Q.97
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.90, B:Q.97
- Water bridges: B:T.55
ACT.22: 3 residues within 4Å:- Chain B: Q.79, R.252
- Chain C: A.268
6 PLIP interactions:1 interactions with chain C, 5 interactions with chain B- Water bridges: C:A.268, B:Q.79, B:R.80, B:R.252
- Hydrogen bonds: B:Q.79
- Salt bridges: B:R.252
ACT.23: 3 residues within 4Å:- Chain B: Y.95, Y.101, Y.112
1 PLIP interactions:1 interactions with chain B- Water bridges: B:A.96
ACT.36: 5 residues within 4Å:- Chain C: Y.90, S.91, S.92, D.136, V.138
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.91
- Water bridges: C:S.92
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.11: 7 residues within 4Å:- Chain A: G.124, H.125, S.126, D.259
- Chain C: S.107, Q.111
- Ligands: GOL.6
4 PLIP interactions:1 interactions with chain C, 3 interactions with chain A- Water bridges: C:K.110, A:H.125, A:D.261
- Hydrogen bonds: A:H.125
PEG.24: 7 residues within 4Å:- Chain B: C.37, T.154, R.156, I.207, M.208, N.209, C.242
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.156, B:I.207, B:N.209
PEG.37: 8 residues within 4Å:- Chain C: E.52, I.53, P.54, T.55, D.56, G.61, Y.90, Q.97
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:T.55, C:D.56, C:D.56, C:Y.90, C:Q.97
PEG.38: 8 residues within 4Å:- Chain B: V.432, S.433, T.435
- Chain C: G.63, W.65, V.66, P.67, T.68
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain B- Water bridges: C:T.68
- Hydrogen bonds: B:S.433, B:S.433
- 6 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Post Translational Modification)
NGA.13: 4 residues within 4Å:- Chain A: T.429
- Chain B: H.290, R.292
- Ligands: NGA.14
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:R.292
- Water bridges: A:T.429, A:T.429
NGA.14: 8 residues within 4Å:- Chain A: T.430, A.431, V.432
- Chain B: A.45, T.46, P.67, P.70
- Ligands: NGA.13
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Water bridges: A:A.431, A:A.431
- Hydrogen bonds: B:T.46
NGA.26: 4 residues within 4Å:- Chain B: T.429
- Chain C: H.290, R.292
- Ligands: NGA.27
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain C- Water bridges: B:T.429, B:T.429
- Hydrogen bonds: C:R.292
NGA.27: 8 residues within 4Å:- Chain B: T.430, A.431, V.432
- Chain C: A.45, T.46, P.67, P.70
- Ligands: NGA.26
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:T.46, C:T.46
NGA.40: 4 residues within 4Å:- Chain A: H.290, R.292
- Chain C: T.429
- Ligands: NGA.41
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain A- Water bridges: C:T.429, C:T.429
- Hydrogen bonds: A:R.292
NGA.41: 7 residues within 4Å:- Chain A: A.45, T.46, P.70
- Chain C: T.430, A.431, V.432
- Ligands: NGA.40
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.46
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dubois, R.M. et al., Functional and Evolutionary Insight from the Crystal Structure of Rubella Virus Protein E1. Nature (2013)
- Release Date
- 2013-01-09
- Peptides
- E1 ENVELOPE GLYCOPROTEIN: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 15 x GOL: GLYCEROL(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 7 x ACT: ACETATE ION(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 6 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dubois, R.M. et al., Functional and Evolutionary Insight from the Crystal Structure of Rubella Virus Protein E1. Nature (2013)
- Release Date
- 2013-01-09
- Peptides
- E1 ENVELOPE GLYCOPROTEIN: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C