SMTL ID : 1b9t.1

NOVEL AROMATIC INHIBITORS OF INFLUENZA VIRUS NEURAMINIDASE MAKE SELECTIVE INTERACTIONS WITH CONSERVED RESIDUES AND WATER MOLECULES IN THE ACTIVE SITE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 6 residues within 4Å: Chain A: Y.6, P.7, R.8, L.9, N.208, R.280 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.7, A:N.208 NAG.5: 6 residues within 4Å: Chain B: Y.6, P.7, R.8, L.9, N.208, R.280 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.7, B:N.208 NAG.9: 6 residues within 4Å: Chain C: Y.6, P.7, R.8, L.9, N.208, R.280 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:P.7, C:N.208 NAG.13: 6 residues within 4Å: Chain D: Y.6, P.7, R.8, L.9, N.208, R.280 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:P.7, D:N.208

8 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.217, T.221, D.248, G.270, G.271 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.217, A:T.221, A:D.248, H2O.1, H2O.1 CA.3: 7 residues within 4Å: Chain A: E.92 Chain B: E.92 Chain C: E.92 Chain D: E.92 Ligands: CA.7, CA.11, CA.15 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain C Metal complexes: B:E.92, A:E.92, D:E.92, C:E.92 CA.6: 5 residues within 4Å: Chain B: D.217, T.221, D.248, G.270, G.271 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.217, B:T.221, B:D.248, H2O.5, H2O.5 CA.7: 7 residues within 4Å: Chain A: E.92 Chain B: E.92 Chain C: E.92 Chain D: E.92 Ligands: CA.3, CA.11, CA.15 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain C Metal complexes: B:E.92, A:E.92, D:E.92, C:E.92 CA.10: 5 residues within 4Å: Chain C: D.217, T.221, D.248, G.270, G.271 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.217, C:T.221, C:D.248, H2O.9, H2O.9 CA.11: 7 residues within 4Å: Chain A: E.92 Chain B: E.92 Chain C: E.92 Chain D: E.92 Ligands: CA.3, CA.7, CA.15 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain C Metal complexes: B:E.92, A:E.92, D:E.92, C:E.92 CA.14: 5 residues within 4Å: Chain D: D.217, T.221, D.248, G.270, G.271 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.217, D:T.221, D:D.248, H2O.13, H2O.13 CA.15: 7 residues within 4Å: Chain A: E.92 Chain B: E.92 Chain C: E.92 Chain D: E.92 Ligands: CA.3, CA.7, CA.11 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain C Metal complexes: B:E.92, A:E.92, D:E.92, C:E.92

4 x RAI: 1-(4-CARBOXY-2-GUANIDINOPENTYL)-5,5'-DI(HYDROXYMETHYL)PYRROLIDIN-2-ONE(Non-covalent)

RAI.4: 15 residues within 4Å: Chain A: R.40, E.41, D.73, R.74, W.101, S.102, R.147, T.148, E.150, A.169, E.199, E.200, R.216, R.298, Y.333 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:R.74, A:W.101, A:R.147 Hydrogen bonds: A:D.73, A:R.74, A:E.150, A:E.150, A:R.216 Salt bridges: A:R.40, A:E.199, A:E.200, A:R.216, A:R.298 RAI.8: 15 residues within 4Å: Chain B: R.40, E.41, D.73, R.74, W.101, S.102, R.147, T.148, E.150, A.169, E.199, E.200, R.216, R.298, Y.333 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:R.74, B:W.101, B:R.147 Hydrogen bonds: B:D.73, B:R.74, B:E.150, B:E.150, B:R.216 Salt bridges: B:R.40, B:E.199, B:E.200, B:R.216, B:R.298 RAI.12: 15 residues within 4Å: Chain C: R.40, E.41, D.73, R.74, W.101, S.102, R.147, T.148, E.150, A.169, E.199, E.200, R.216, R.298, Y.333 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:R.74, C:W.101, C:R.147 Hydrogen bonds: C:D.73, C:R.74, C:E.150, C:E.150, C:R.216 Salt bridges: C:R.40, C:E.199, C:E.200, C:R.216, C:R.298 RAI.16: 15 residues within 4Å: Chain D: R.40, E.41, D.73, R.74, W.101, S.102, R.147, T.148, E.150, A.169, E.199, E.200, R.216, R.298, Y.333 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:R.74, D:W.101, D:R.147 Hydrogen bonds: D:D.73, D:R.74, D:E.150, D:E.150, D:R.216 Salt bridges: D:R.40, D:E.199, D:E.200, D:R.216, D:R.298

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Finley, J.B. et al., Novel aromatic inhibitors of influenza virus neuraminidase make selective interactions with conserved residues and water molecules in the active site. J.Mol.Biol. (1999)

Release Date

1999-02-27

Peptides

PROTEIN (NEURAMINIDASE): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

PROTEIN (NEURAMINIDASE)

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