- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- homo-trimer
- Ligands
- 1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 10 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.8: 4 residues within 4Å:- Chain A: P.126, K.127, N.157
- Ligands: NAG-NAG.2
No protein-ligand interaction detected (PLIP)NAG.12: 2 residues within 4Å:- Chain A: N.25, T.27
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.27
NAG.14: 2 residues within 4Å:- Chain B: N.25, T.27
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:T.27, B:T.27
NAG.15: 5 residues within 4Å:- Chain B: N.129, T.131, R.132, A.156
- Ligands: NAG.16
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.129
NAG.16: 5 residues within 4Å:- Chain B: P.126, H.128, A.156, N.157
- Ligands: NAG.15
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:A.156
NAG.17: 3 residues within 4Å:- Chain B: E.36, S.38, N.289
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.289
NAG.22: 5 residues within 4Å:- Chain B: E.476, E.479, S.480, N.483, T.485
No protein-ligand interaction detected (PLIP)NAG.26: 2 residues within 4Å:- Chain C: N.25, T.27
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:T.27
NAG.27: 4 residues within 4Å:- Chain C: N.129, T.131, R.132
- Ligands: NAG.28
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:N.129, C:R.132
NAG.28: 2 residues within 4Å:- Chain C: N.157
- Ligands: NAG.27
No protein-ligand interaction detected (PLIP)- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.9: 7 residues within 4Å:- Chain A: D.99, Y.208, W.233, T.234, L.235
- Chain B: K.401, L.402
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:D.99, A:D.99, A:W.233, A:T.234, A:L.235
- Water bridges: A:Y.208
PEG.25: 5 residues within 4Å:- Chain B: V.32, T.318, W.350, I.377, T.378
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:T.378
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.10: 2 residues within 4Å:- Chain A: V.134, W.152
No protein-ligand interaction detected (PLIP)EDO.11: 2 residues within 4Å:- Chain A: V.32, T.378
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.378
EDO.13: 4 residues within 4Å:- Chain A: K.307, Y.308, F.417, W.421
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Y.308, A:Y.308
EDO.18: 6 residues within 4Å:- Chain B: S.290, S.291, L.292, P.293, I.385, M.388
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.291, B:M.388
EDO.19: 7 residues within 4Å:- Chain B: K.380, E.432, R.435, F.439
- Chain C: V.21, L.22, L.331
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.380
- Water bridges: B:R.435
EDO.20: 6 residues within 4Å:- Chain B: Y.208, W.233, T.234, L.235
- Chain C: K.401, L.402
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:T.234, B:L.235
EDO.21: 3 residues within 4Å:- Chain B: W.343, H.354, Y.363
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Y.363, B:Y.363
EDO.23: 6 residues within 4Å:- Chain B: N.58, A.60, G.90, T.91, F.97, Y.100
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:N.58, B:T.91
- Water bridges: B:G.90
EDO.24: 6 residues within 4Å:- Chain B: E.105, G.266, I.267, G.396, K.397, E.398
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:E.105, B:E.105, B:I.267
- Water bridges: B:K.397, B:E.398
EDO.29: 6 residues within 4Å:- Chain C: N.58, A.60, G.90, T.91, F.97, Y.100
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:N.58, C:T.91
- Water bridges: C:F.97, C:F.97
EDO.30: 7 residues within 4Å:- Chain C: Y.93, W.152, H.182, P.184, S.185, D.189, Q.225
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:Y.93, C:S.185, C:S.185
EDO.31: 7 residues within 4Å:- Chain A: V.21, L.22, L.331
- Chain C: K.380, E.432, R.435, F.439
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.432
- Water bridges: C:R.435, C:R.435
EDO.32: 4 residues within 4Å:- Chain C: K.221, V.222, R.223, N.224
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.221, C:N.224
EDO.33: 6 residues within 4Å:- Chain C: E.88, G.90, T.91, C.92, R.223
- Ligands: NAG-NAG.6
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:N.89, C:G.90, C:T.91
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ghafoori, S.M. et al., Structural characterisation of hemagglutinin from seven Influenza A H1N1 strains reveal diversity in the C05 antibody recognition site. Sci Rep (2023)
- Release Date
- 2018-12-05
- Peptides
- Hemagglutinin: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- homo-trimer
- Ligands
- 1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 10 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ghafoori, S.M. et al., Structural characterisation of hemagglutinin from seven Influenza A H1N1 strains reveal diversity in the C05 antibody recognition site. Sci Rep (2023)
- Release Date
- 2018-12-05
- Peptides
- Hemagglutinin: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C