SMTL ID : 1ivd.1

STRUCTURES OF AROMATIC INHIBITORS OF INFLUENZA VIRUS NEURAMINIDASE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

8 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: 7 residues within 4Å: Chain A: E.2, Y.3, N.5, S.7, Y.203 Ligands: NAG-NAG.4, NAG-NAG.4 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 7 residues within 4Å: Chain A: I.152, N.153, Y.203, P.204, M.226, E.227 Ligands: NAG-NAG.1 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 7 residues within 4Å: Chain B: E.2, Y.3, N.5, S.7, Y.203 Ligands: NAG-NAG.8, NAG-NAG.8 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 7 residues within 4Å: Chain B: I.152, N.153, Y.203, P.204, M.226, E.227 Ligands: NAG-NAG.5 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 7 residues within 4Å: Chain C: E.2, Y.3, N.5, S.7, Y.203 Ligands: NAG-NAG.16, NAG-NAG.16 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 7 residues within 4Å: Chain C: I.152, N.153, Y.203, P.204, M.226, E.227 Ligands: NAG-NAG.13 No protein-ligand interaction detected (PLIP) NAG-NAG.17: 7 residues within 4Å: Chain D: E.2, Y.3, N.5, S.7, Y.203 Ligands: NAG-NAG.20, NAG-NAG.20 No protein-ligand interaction detected (PLIP) NAG-NAG.20: 7 residues within 4Å: Chain D: I.152, N.153, Y.203, P.204, M.226, E.227 Ligands: NAG-NAG.17 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- FUL: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUL.2: 5 residues within 4Å: Chain A: N.65, D.66, W.356, I.388 Chain B: F.385 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.356 NAG-NAG-BMA-FUL.14: 5 residues within 4Å: Chain C: N.65, D.66, W.356, I.388 Chain D: F.385 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.356

4 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-D-mannopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN.3: 8 residues within 4Å: Chain A: D.116, N.119 Chain B: V.315, D.318, G.373, T.374, G.375, S.376 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN-MAN.7: 8 residues within 4Å: Chain B: D.116, N.119 Chain C: V.315, D.318, G.373, T.374, G.375, S.376 1 PLIP interactions: 1 interactions with chain C Water bridges: C:V.315 NAG-NAG-BMA-MAN-MAN-MAN.15: 8 residues within 4Å: Chain C: D.116, N.119 Chain D: V.315, D.318, G.373, T.374, G.375, S.376 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN-MAN.19: 8 residues within 4Å: Chain A: V.315, D.318, G.373, T.374, G.375, S.376 Chain D: D.116, N.119 1 PLIP interactions: 1 interactions with chain A Water bridges: A:V.315

2 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.6: 5 residues within 4Å: Chain B: N.65, D.66, W.356, I.388 Chain C: F.385 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:W.356 NAG-NAG-BMA-FUC.18: 5 residues within 4Å: Chain A: F.385 Chain D: N.65, D.66, W.356, I.388 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:W.356

4 x CA: CALCIUM ION(Non-covalent)

CA.9: 5 residues within 4Å: Chain A: D.212, G.216, G.264, T.265, Q.266 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.212, A:G.264, A:T.265, A:Q.266, H2O.4 CA.11: 5 residues within 4Å: Chain B: D.212, G.216, G.264, T.265, Q.266 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.212, B:G.216, B:G.264, B:T.265, B:Q.266 CA.21: 5 residues within 4Å: Chain C: D.212, G.216, G.264, T.265, Q.266 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.212, C:G.264, C:T.265, C:Q.266, H2O.9 CA.23: 5 residues within 4Å: Chain D: D.212, G.216, G.264, T.265, Q.266 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.212, D:G.216, D:G.264, D:T.265, D:Q.266

4 x ST1: 4-(ACETYLAMINO)-3-HYDROXY-5-NITROBENZOIC ACID(Non-covalent)

ST1.10: 12 residues within 4Å: Chain A: R.37, E.38, D.70, R.71, W.97, R.143, E.146, E.195, E.196, R.211, R.290, Y.325 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:D.70, A:D.70, A:E.146 Water bridges: A:R.71, A:R.71, A:E.196 Salt bridges: A:R.37, A:R.211, A:R.290 ST1.12: 12 residues within 4Å: Chain B: R.37, E.38, D.70, R.71, W.97, R.143, E.146, E.195, E.196, R.211, R.290, Y.325 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.70, B:E.146 Salt bridges: B:R.37, B:R.211, B:R.290 ST1.22: 12 residues within 4Å: Chain C: R.37, E.38, D.70, R.71, W.97, R.143, E.146, E.195, E.196, R.211, R.290, Y.325 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:D.70, C:E.146, C:E.146 Water bridges: C:R.71, C:R.71, C:E.196, C:E.196 Salt bridges: C:R.37, C:R.211, C:R.290 ST1.24: 12 residues within 4Å: Chain D: R.37, E.38, D.70, R.71, W.97, R.143, E.146, E.195, E.196, R.211, R.290, Y.325 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:D.70, D:D.70, D:E.146, D:E.146 Salt bridges: D:R.37, D:R.211, D:R.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jedrzejas, M.J. et al., Structures of aromatic inhibitors of influenza virus neuraminidase. Biochemistry (1995)

Release Date

1995-03-31

Peptides

INFLUENZA A SUBTYPE N2 NEURAMINIDASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

INFLUENZA A SUBTYPE N2 NEURAMINIDASE

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