SMTL ID : 1ivc.1

STRUCTURES OF AROMATIC INHIBITORS OF INFLUENZA VIRUS NEURAMINIDASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 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: 6 residues within 4Å: Chain A: E.2, N.5, S.7, Y.203 Ligands: NAG-NAG.4, NAG-NAG.4 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 8 residues within 4Å: Chain A: N.5, 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: 6 residues within 4Å: Chain B: E.2, N.5, S.7, Y.203 Ligands: NAG-NAG.8, NAG-NAG.8 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 8 residues within 4Å: Chain B: N.5, 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: 6 residues within 4Å: Chain C: E.2, N.5, S.7, Y.203 Ligands: NAG-NAG.16, NAG-NAG.16 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 8 residues within 4Å: Chain C: N.5, 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: 6 residues within 4Å: Chain D: E.2, N.5, S.7, Y.203 Ligands: NAG-NAG.20, NAG-NAG.20 No protein-ligand interaction detected (PLIP) NAG-NAG.20: 8 residues within 4Å: Chain D: N.5, 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, W.356, I.388 Chain B: N.382, F.385 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.356 Hydrogen bonds: B:N.382 NAG-NAG-BMA-FUL.14: 5 residues within 4Å: Chain C: N.65, W.356, I.388 Chain D: N.382, F.385 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:W.356 Hydrogen bonds: D:N.382

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

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, W.356, I.388 Chain C: N.382, F.385 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:W.356 Hydrogen bonds: C:N.382 NAG-NAG-BMA-FUC.18: 5 residues within 4Å: Chain A: N.382, F.385 Chain D: N.65, W.356, I.388 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:W.356 Hydrogen bonds: A:N.382

4 x CA: CALCIUM ION(Non-covalent)

CA.9: 8 residues within 4Å: Chain A: D.212, N.213, G.216, D.243, G.264, T.265, Q.266, G.267 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.212, A:G.216, A:G.264, A:T.265, A:Q.266 CA.11: 8 residues within 4Å: Chain B: D.212, N.213, G.216, D.243, G.264, T.265, Q.266, G.267 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: 8 residues within 4Å: Chain C: D.212, N.213, G.216, D.243, G.264, T.265, Q.266, G.267 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.212, C:G.216, C:G.264, C:T.265, C:Q.266 CA.23: 8 residues within 4Å: Chain D: D.212, N.213, G.216, D.243, G.264, T.265, Q.266, G.267 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 ST2: 4-(ACETYLAMINO)-5-AMINO-3-HYDROXYBENZOIC ACID(Non-covalent)

ST2.10: 10 residues within 4Å: Chain A: R.37, D.70, R.71, W.97, S.98, E.146, E.196, R.211, R.290, Y.325 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.71, A:E.196, A:R.211, A:Y.325, A:Y.325 Salt bridges: A:R.37, A:R.290 ST2.12: 10 residues within 4Å: Chain B: R.37, D.70, R.71, W.97, S.98, E.146, E.196, R.211, R.290, Y.325 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.71, B:E.196, B:E.196, B:R.211, B:Y.325, B:Y.325 Salt bridges: B:R.37, B:R.290 ST2.22: 10 residues within 4Å: Chain C: R.37, D.70, R.71, W.97, S.98, E.146, E.196, R.211, R.290, Y.325 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:R.71, C:E.196, C:E.196, C:R.211, C:Y.325, C:Y.325 Salt bridges: C:R.37, C:R.290 ST2.24: 10 residues within 4Å: Chain D: R.37, D.70, R.71, W.97, S.98, E.146, E.196, R.211, R.290, Y.325 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.71, D:E.196, D:R.211, D:Y.325, D:Y.325 Salt bridges: D:R.37, 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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