- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 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- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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
- 3 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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
NAG-NAG-BMA-MAN-MAN-MAN.4: 18 residues within 4Å:- Chain A: N.14, S.15, D.250, R.284, I.286, E.295, L.297, P.310, I.311, S.312, N.313, V.315, R.373, L.374, G.375, S.376
- Chain B: N.119, N.120
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.313, A:N.313, A:N.313, A:N.313, A:R.373, A:N.313, A:D.250, A:R.284, A:R.284
- Water bridges: A:D.250, A:D.250
NAG-NAG-BMA-MAN-MAN-MAN.5: 16 residues within 4Å:- Chain C: N.120
- Chain D: N.14, D.250, R.284, I.286, E.295, L.297, P.310, I.311, S.312, N.313, V.315, R.373, L.374, G.375, S.376
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:N.313, D:N.313, D:N.313, D:N.313, D:R.373, D:R.373, D:N.313, D:N.313, D:R.284, D:R.284
- Water bridges: D:D.250, D:E.295
NAG-NAG-BMA-MAN-MAN-MAN.6: 16 residues within 4Å:- Chain B: N.14, D.250, R.284, I.286, E.295, L.297, P.310, I.311, S.312, N.313, V.315, L.374, G.375, S.376
- Chain D: N.119, N.120
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:N.313, B:N.313, B:N.313, B:D.250, B:R.284, B:R.284
- Water bridges: B:D.250, B:D.250
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.7: 2 residues within 4Å:- Chain A: N.5, K.154
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.5, A:K.154
NAG.12: 2 residues within 4Å:- Chain B: N.5, K.154
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.5, B:K.154
NAG.19: 3 residues within 4Å:- Chain C: N.65, L.358
- Chain D: Y.387
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:L.358
- Hydrogen bonds: C:N.65
NAG.20: 2 residues within 4Å:- Chain C: N.5, K.154
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:N.5, C:K.154
NAG.25: 3 residues within 4Å:- Chain B: Y.387
- Chain D: N.65, L.358
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:L.358
- Hydrogen bonds: D:N.65
- 4 x DAN: 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID(Non-covalent)
DAN.8: 14 residues within 4Å:- Chain A: 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
18 PLIP interactions:18 interactions with chain A- Hydrophobic interactions: A:W.98, A:I.142, A:R.144
- Hydrogen bonds: A:E.38, A:R.71, A:R.144, A:E.197, A:R.212, A:R.212, A:Y.325
- Water bridges: A:R.37, A:E.147, A:E.197, A:E.197, A:R.291
- Salt bridges: A:R.37, A:R.212, A:R.291
DAN.13: 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
16 PLIP interactions:16 interactions with chain B- Hydrophobic interactions: B:W.98, B:I.142, B:R.144
- Hydrogen bonds: B:E.38, B:R.71, B:R.144, B:E.197, B:R.212, B:R.212
- Water bridges: B:R.37, B:D.70, B:E.147, B:E.197
- Salt bridges: B:R.37, B:R.212, B:R.291
DAN.21: 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
18 PLIP interactions:18 interactions with chain C- Hydrophobic interactions: C:W.98, C:I.142, C:R.144
- Hydrogen bonds: C:E.38, C:R.71, C:R.144, C:E.197, C:R.212, C:R.212, C:Y.325
- Water bridges: C:R.37, C:E.147, C:E.197, C:E.197, C:R.291
- Salt bridges: C:R.37, C:R.212, C:R.291
DAN.26: 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
16 PLIP interactions:16 interactions with chain D- Hydrophobic interactions: D:W.98, D:I.142, D:R.144
- Hydrogen bonds: D:E.38, D:R.71, D:R.144, D:E.197, D:R.212, D:R.212
- Water bridges: D:R.37, D:E.147, D:E.197, D:R.291
- Salt bridges: D:R.37, D:R.212, D:R.291
- 9 x GOL: GLYCEROL(Non-functional Binders)
GOL.9: 6 residues within 4Å:- Chain A: R.26
- Chain B: H.63, N.65, G.66, T.67, S.72
6 PLIP interactions:4 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:Q.55, B:H.63, B:S.72, A:R.26, A:R.26
- Water bridges: B:Q.55
GOL.10: 6 residues within 4Å:- Chain A: E.29, D.30, A.31, H.32, R.60
- Chain C: D.30
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.30, A:A.31
- Water bridges: A:R.60
GOL.14: 7 residues within 4Å:- Chain B: R.26
- Chain D: Q.55, H.63, N.65, G.66, T.67, S.72
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:N.65, D:S.72
GOL.15: 6 residues within 4Å:- Chain B: R.1, P.45, Q.46, H.104, G.106, M.107
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.1, B:R.1, B:H.104
- Water bridges: B:R.109
GOL.16: 7 residues within 4Å:- Chain B: R.169, A.170, L.188, A.189, G.190, A.192, Q.193
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:R.169, B:A.170, B:G.190
- Water bridges: B:G.190, B:G.190
GOL.22: 6 residues within 4Å:- Chain A: Q.55, H.63, N.65, T.67, S.72
- Chain C: R.26
6 PLIP interactions:4 interactions with chain A, 2 interactions with chain C- Hydrogen bonds: A:Q.55, C:R.26, C:R.26
- Water bridges: A:H.63, A:N.65, A:S.72
GOL.23: 6 residues within 4Å:- Chain C: A.170, L.188, A.189, G.190, A.192, Q.193
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:A.170, C:L.188
- Water bridges: C:R.169, C:R.169
GOL.27: 7 residues within 4Å:- Chain C: Q.55, H.63, N.65, G.66, T.67, S.72
- Chain D: R.26
6 PLIP interactions:4 interactions with chain C, 2 interactions with chain D- Hydrogen bonds: C:Q.55, C:S.72, D:R.26, D:R.26
- Water bridges: C:H.63, C:N.65
GOL.28: 2 residues within 4Å:- Chain D: V.206, D.226
1 PLIP interactions:1 interactions with chain D- Water bridges: D:D.226
- 5 x CA: CALCIUM ION(Non-covalent)
CA.11: 5 residues within 4Å:- Chain A: D.213, G.217, D.244, P.267, G.268
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.213, A:G.217, A:D.244, A:P.267, H2O.2, H2O.10
CA.17: 5 residues within 4Å:- Chain B: D.213, G.217, D.244, P.267, G.268
6 PLIP interactions:4 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.213, B:G.217, B:D.244, B:P.267, H2O.18, H2O.22
CA.18: 4 residues within 4Å:- Chain A: H.32
- Chain B: H.32
- Chain C: H.32
- Chain D: H.32
2 PLIP interactions:1 interactions with chain D, 1 interactions with chain B- Metal complexes: D:H.32, B:H.32
CA.24: 5 residues within 4Å:- Chain C: D.213, G.217, D.244, P.267, G.268
6 PLIP interactions:4 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.213, C:G.217, C:D.244, C:P.267, H2O.30, H2O.34
CA.29: 5 residues within 4Å:- Chain D: D.213, G.217, D.244, P.267, G.268
6 PLIP interactions:4 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.213, D:G.217, D:D.244, D:P.267, H2O.42, H2O.44
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Salinger, M.T. et al., High Resolution Structures of Viral Neuraminidase with Drugs Bound in the Active Site. (In preparation). To Be Published
- Release Date
- 2018-08-29
- Peptides
- Neuraminidase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 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- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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
- 3 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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
- 5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 4 x DAN: 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID(Non-covalent)
- 9 x GOL: GLYCEROL(Non-functional Binders)
- 5 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Salinger, M.T. et al., High Resolution Structures of Viral Neuraminidase with Drugs Bound in the Active Site. (In preparation). To Be Published
- Release Date
- 2018-08-29
- Peptides
- Neuraminidase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D