- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.08 Å
- Oligo State
- homo-tetramer
- Ligands
- 3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 1 x NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)
SIA.5: 13 residues within 4Å:- Chain A: R.37, E.38, D.70, R.71, W.98, R.144, A.166, E.196, E.197, R.212, N.214, R.291, Y.325
20 PLIP interactions:20 interactions with chain A- Hydrophobic interactions: A:W.98
- Hydrogen bonds: A:E.38, A:D.70, A:D.70, A:D.70, A:R.71, A:R.144, A:E.197, A:R.212, A:R.212, A:Y.325
- Water bridges: A:R.37, A:D.70, A:R.75, A:E.147, A:E.197, A:E.197
- Salt bridges: A:R.37, A:R.212, A:R.291
SIA.6: 8 residues within 4Å:- Chain A: S.287, S.290, S.292, N.319, Q.320, N.321, W.322, K.353
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:W.322
- Hydrogen bonds: A:S.287, A:S.290, A:S.292, A:S.292
- Water bridges: A:N.319, A:Q.320
SIA.15: 14 residues within 4Å:- Chain B: R.37, E.38, D.70, R.71, W.98, I.142, R.144, A.166, E.196, E.197, R.212, N.214, R.291, Y.325
21 PLIP interactions:21 interactions with chain B- Hydrophobic interactions: B:W.98, B:I.142
- Hydrogen bonds: B:E.38, B:D.70, B:D.70, B:R.71, B:R.144, B:E.197, B:R.212, B:R.212, B:Y.325
- Water bridges: B:R.37, B:R.37, B:R.75, B:E.147, B:E.197, B:E.197, B:R.291
- Salt bridges: B:R.37, B:R.212, B:R.291
SIA.16: 8 residues within 4Å:- Chain B: S.287, S.290, S.292, N.319, Q.320, N.321, W.322, K.353
11 PLIP interactions:11 interactions with chain B- Hydrophobic interactions: B:W.322
- Hydrogen bonds: B:S.287, B:S.287, B:S.290, B:S.292, B:S.292, B:N.319, B:N.319, B:N.319
- Water bridges: B:K.288, B:D.289
SIA.24: 14 residues within 4Å:- Chain C: R.37, E.38, D.70, R.71, W.98, I.142, R.144, A.166, E.196, E.197, R.212, N.214, R.291, Y.325
19 PLIP interactions:19 interactions with chain C- Hydrophobic interactions: C:W.98, C:I.142
- Hydrogen bonds: C:E.38, C:D.70, C:D.70, C:D.70, C:R.71, C:R.144, C:E.197, C:R.212, C:R.212
- Water bridges: C:R.37, C:R.37, C:R.75, C:E.147, C:E.147
- Salt bridges: C:R.37, C:R.212, C:R.291
SIA.25: 8 residues within 4Å:- Chain C: S.287, S.290, S.292, N.319, Q.320, N.321, W.322, K.353
8 PLIP interactions:8 interactions with chain C- Hydrophobic interactions: C:W.322
- Hydrogen bonds: C:S.287, C:S.290, C:S.292, C:S.292, C:N.319, C:N.319, C:N.319
SIA.34: 14 residues within 4Å:- Chain D: R.37, E.38, D.70, R.71, W.98, I.142, R.144, A.166, E.196, E.197, R.212, N.214, R.291, Y.325
19 PLIP interactions:19 interactions with chain D- Hydrophobic interactions: D:W.98, D:I.142, D:R.144
- Hydrogen bonds: D:E.38, D:D.70, D:D.70, D:R.71, D:R.144, D:E.197, D:R.212, D:R.212
- Water bridges: D:R.37, D:R.71, D:R.75, D:E.197, D:R.291
- Salt bridges: D:R.37, D:R.212, D:R.291
SIA.35: 8 residues within 4Å:- Chain D: S.287, S.290, S.292, N.319, Q.320, N.321, W.322, K.353
9 PLIP interactions:9 interactions with chain D- Hydrophobic interactions: D:W.322
- Hydrogen bonds: D:S.287, D:S.290, D:S.292, D:S.292, D:N.319, D:N.319, D:N.319
- Water bridges: D:K.288
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 6 residues within 4Å:- Chain A: Q.55, H.63, N.65, S.72, F.74
- Chain C: R.26
6 PLIP interactions:2 interactions with chain C, 4 interactions with chain A- Hydrogen bonds: C:R.26, C:R.26, A:Q.55, A:G.66, A:S.72
- Water bridges: A:Q.55
GOL.17: 6 residues within 4Å:- Chain A: R.26
- Chain B: Q.55, H.63, N.65, S.72, F.74
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:Q.55, B:Q.55, B:S.72, A:R.26, A:R.26
GOL.26: 6 residues within 4Å:- Chain C: Q.55, H.63, N.65, S.72, F.74
- Chain D: R.26
5 PLIP interactions:2 interactions with chain D, 3 interactions with chain C- Hydrogen bonds: D:R.26, D:R.26, C:Q.55, C:G.66, C:S.72
GOL.36: 6 residues within 4Å:- Chain B: R.26
- Chain D: Q.55, H.63, N.65, S.72, F.74
5 PLIP interactions:2 interactions with chain B, 3 interactions with chain D- Hydrogen bonds: B:R.26, B:R.26, D:Q.55, D:S.72
- Water bridges: D:Q.55
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
NAG.8: 2 residues within 4Å:- Chain A: N.5, K.154
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:N.5, A:K.154
- Water bridges: A:N.5
NAG.9: 3 residues within 4Å:- Chain A: N.65, L.358
- Chain C: Y.387
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain C- Hydrophobic interactions: A:L.358
- Hydrogen bonds: A:N.65, C:Y.387
NAG.18: 3 residues within 4Å:- Chain A: Y.387
- Chain B: N.65, L.358
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:Y.387, B:N.65
- Hydrophobic interactions: B:L.358
NAG.27: 3 residues within 4Å:- Chain C: N.65, L.358
- Chain D: Y.387
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrophobic interactions: C:L.358
- Hydrogen bonds: C:N.65, D:Y.387
NAG.37: 3 residues within 4Å:- Chain B: Y.387
- Chain D: N.65, L.358
3 PLIP interactions:2 interactions with chain D, 1 interactions with chain B- Hydrophobic interactions: D:L.358
- Hydrogen bonds: D:N.65, B:Y.387
- 3 x BMA: beta-D-mannopyranose(Non-covalent)
BMA.10: 6 residues within 4Å:- Chain A: P.310, I.311, S.312, N.313
- Ligands: NAG-NAG.1, MAN.11
No protein-ligand interaction detected (PLIP)BMA.19: 5 residues within 4Å:- Chain B: I.311, S.312, N.313
- Ligands: NAG-NAG.2, MAN.20
No protein-ligand interaction detected (PLIP)BMA.32: 4 residues within 4Å:- Chain D: I.311, S.312, N.313
- Ligands: NAG-NAG.4
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:N.313
- 10 x MAN: alpha-D-mannopyranose(Non-covalent)(Non-functional Binders)
MAN.11: 7 residues within 4Å:- Chain A: E.295, L.297, P.310, N.313
- Ligands: BMA.10, MAN.12, MAN.13
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.295
MAN.12: 4 residues within 4Å:- Chain A: D.250, R.284, P.310
- Ligands: MAN.11
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.284
- Water bridges: A:E.295
MAN.13: 6 residues within 4Å:- Chain A: I.286, E.295, L.297, N.313, V.315
- Ligands: MAN.11
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.313
MAN.20: 7 residues within 4Å:- Chain B: E.295, L.297, P.310, N.313
- Ligands: BMA.19, MAN.21, MAN.22
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:E.295
MAN.21: 3 residues within 4Å:- Chain B: D.250, R.284
- Ligands: MAN.20
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.250, B:D.250, B:R.284, B:R.284
- Water bridges: B:D.250
MAN.22: 4 residues within 4Å:- Chain B: E.295, N.313, V.315
- Ligands: MAN.20
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.295, B:N.313
MAN.28: 3 residues within 4Å:- Ligands: NAG-BMA-MAN.3, NAG-BMA-MAN.3, MAN.29
No protein-ligand interaction detected (PLIP)MAN.29: 1 residues within 4Å:- Ligands: MAN.28
No protein-ligand interaction detected (PLIP)MAN.30: 4 residues within 4Å:- Chain C: D.250, R.284, P.310
- Ligands: NAG-BMA-MAN.3
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:D.250, C:R.284
- Water bridges: C:D.250, C:D.250, C:D.250
MAN.31: 5 residues within 4Å:- Chain C: E.295, L.297, N.313, V.315
- Ligands: NAG-BMA-MAN.3
1 PLIP interactions:1 interactions with chain C- Water bridges: C:N.313
- 4 x CA: CALCIUM ION(Non-covalent)
CA.14: 5 residues within 4Å:- Chain A: D.213, G.217, D.244, P.267, G.268
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.213, A:G.217, A:D.244, A:P.267, H2O.11
CA.23: 4 residues within 4Å:- Chain B: D.213, G.217, D.244, P.267
5 PLIP interactions:4 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.213, B:G.217, B:D.244, B:P.267, H2O.28
CA.33: 4 residues within 4Å:- Chain C: D.213, G.217, D.244, P.267
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:D.213, C:G.217, C:D.244, C:P.267
CA.38: 4 residues within 4Å:- Chain D: D.213, G.217, D.244, P.267
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.213, D:G.217, D:D.244, D:P.267
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rudino-Pinera, E. et al., The Crystal Structure of Type a Influenza Virus Neuraminidase of the N6 Subtype Reveals the Existence of Two Separate Neu5Ac Binding Sites. To be Published
- Release Date
- 2006-01-25
- Peptides
- NEURAMINIDASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.08 Å
- Oligo State
- homo-tetramer
- Ligands
- 3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 1 x NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 8 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 3 x BMA: beta-D-mannopyranose(Non-covalent)
- 10 x MAN: alpha-D-mannopyranose(Non-covalent)(Non-functional Binders)
- 4 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rudino-Pinera, E. et al., The Crystal Structure of Type a Influenza Virus Neuraminidase of the N6 Subtype Reveals the Existence of Two Separate Neu5Ac Binding Sites. To be Published
- Release Date
- 2006-01-25
- Peptides
- NEURAMINIDASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D