SMTL ID : 3sal.1 (1 other biounit)

Crystal Structure of Influenza A Virus Neuraminidase N5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: P.9, L.10, N.12, N.279 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.276 NAG-NAG.7: 4 residues within 4Å: Chain B: P.9, L.10, N.12, N.279 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.276 NAG-NAG.13: 4 residues within 4Å: Chain C: P.9, L.10, N.12, N.279 1 PLIP interactions: 1 interactions with chain C Water bridges: C:R.276 NAG-NAG.19: 4 residues within 4Å: Chain D: P.9, L.10, N.12, N.279 1 PLIP interactions: 1 interactions with chain D Water bridges: D:R.276

4 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(Post Translational Modification)

NAG-NAG-BMA.2: 5 residues within 4Å: Chain A: K.62, N.65, T.67, I.361, I.392 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 5 residues within 4Å: Chain B: K.62, N.65, T.67, I.361, I.392 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.14: 5 residues within 4Å: Chain C: K.62, N.65, T.67, I.361, I.392 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.20: 5 residues within 4Å: Chain D: K.62, N.65, T.67, I.361, I.392 No protein-ligand interaction detected (PLIP)

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.213, G.217, D.243, Y.268, G.269 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.213, A:G.217, A:D.243, A:Y.268, H2O.1, H2O.1 CA.9: 5 residues within 4Å: Chain B: D.213, G.217, D.243, Y.268, G.269 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.213, B:G.217, B:D.243, B:Y.268, H2O.18, H2O.18 CA.15: 5 residues within 4Å: Chain C: D.213, G.217, D.243, Y.268, G.269 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.213, C:G.217, C:D.243, C:Y.268, H2O.36, H2O.36 CA.21: 5 residues within 4Å: Chain D: D.213, G.217, D.243, Y.268, G.269 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.213, D:G.217, D:D.243, D:Y.268, H2O.54, H2O.54

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 10 residues within 4Å: Chain A: I.27, S.84, S.85, N.87, Q.90 Chain D: F.34, A.88, A.91, K.92, F.93 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:S.84, A:S.85, A:N.87, D:F.93 Water bridges: A:S.84 GOL.5: 6 residues within 4Å: Chain A: F.93, E.94, H.126, G.129 Chain C: V.19, L.82 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:L.82 Water bridges: A:E.94, A:G.129, A:G.129 GOL.6: 6 residues within 4Å: Chain A: K.206, I.224, F.225, D.226, D.230, E.232 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.206, A:D.226, A:E.232 Water bridges: A:D.230 GOL.10: 10 residues within 4Å: Chain B: I.27, S.84, S.85, N.87, Q.90 Chain C: F.34, A.88, A.91, K.92, F.93 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:S.84, B:S.85, B:N.87, C:F.93 Water bridges: B:S.84 GOL.11: 6 residues within 4Å: Chain B: F.93, E.94, H.126, G.129 Chain D: V.19, L.82 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Water bridges: B:E.94, B:G.129, B:G.129 Hydrogen bonds: D:L.82 GOL.12: 6 residues within 4Å: Chain B: K.206, I.224, F.225, D.226, D.230, E.232 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.206, B:D.226, B:E.232 Water bridges: B:D.230 GOL.16: 10 residues within 4Å: Chain A: F.34, A.88, A.91, K.92, F.93 Chain C: I.27, S.84, S.85, N.87, Q.90 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.84, C:S.85, C:N.87, A:F.93 Water bridges: C:S.84 GOL.17: 6 residues within 4Å: Chain B: V.19, L.82 Chain C: F.93, E.94, H.126, G.129 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Water bridges: C:E.94, C:G.129, C:G.129 Hydrogen bonds: B:L.82 GOL.18: 6 residues within 4Å: Chain C: K.206, I.224, F.225, D.226, D.230, E.232 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.206, C:D.226, C:E.232 Water bridges: C:D.230 GOL.22: 10 residues within 4Å: Chain B: F.34, A.88, A.91, K.92, F.93 Chain D: I.27, S.84, S.85, N.87, Q.90 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain D Hydrogen bonds: B:F.93, D:S.84, D:S.85, D:N.87 Water bridges: D:S.84 GOL.23: 6 residues within 4Å: Chain A: V.19, L.82 Chain D: F.93, E.94, H.126, G.129 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Water bridges: D:E.94, D:G.129, D:G.129 Hydrogen bonds: A:L.82 GOL.24: 6 residues within 4Å: Chain D: K.206, I.224, F.225, D.226, D.230, E.232 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.206, D:D.226, D:E.232 Water bridges: D:D.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, M.Y. et al., Influenza a virus n5 neuraminidase has an extended 150-cavity. J.Virol. (2011)

Release Date

2011-08-10

Peptides

Neuraminidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Neuraminidase

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