SMTL ID : 6eku.1

Vibrio cholerae neuraminidase complexed with zanamivir

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x ZMR: ZANAMIVIR(Non-covalent)

ZMR.1: 18 residues within 4Å: Chain A: R.200, I.201, E.219, R.221, D.226, P.227, D.268, Q.293, N.294, N.521, L.556, S.594, E.595, R.611, D.613, F.614, R.688, Y.716 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:I.201, A:Q.293 Hydrogen bonds: A:R.221, A:N.294, A:N.294, A:S.594, A:E.595, A:R.611, A:R.611 Water bridges: A:D.268, A:Q.293, A:Q.293, A:Q.293, A:Q.293, A:E.595 Salt bridges: A:R.200, A:E.219, A:D.226, A:D.268, A:R.611, A:R.688

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: P.492, E.493, V.494, E.495 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.492 Water bridges: A:E.495 GOL.3: 5 residues within 4Å: Chain A: P.300, W.301, L.514, Y.515, R.553 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.515, A:Y.515 Water bridges: A:K.496, A:S.513, A:R.553 GOL.4: 4 residues within 4Å: Chain A: D.296, F.554, E.592, F.614 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.296, A:F.554, A:E.592 GOL.5: 7 residues within 4Å: Chain A: Q.334, V.365, R.464, H.466, N.517, D.552, T.575 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.334, A:N.517, A:N.517, A:T.575 Water bridges: A:R.363, A:R.363, A:N.557

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain A: P.524, G.525, D.597, D.658, A.659 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:P.524, A:D.597, A:D.658, A:A.659, H2O.9

2 x NA: SODIUM ION(Non-functional Binders)

NA.7: 7 residues within 4Å: Chain A: G.46, G.49, N.171, S.173, S.174, T.176, D.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.46, A:N.171 NA.8: 4 residues within 4Å: Chain A: A.229, N.232, D.265, T.289 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.229, A:N.232, A:T.289

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 4 residues within 4Å: Chain A: F.3, D.4, Q.19, Y.55 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.4, A:Y.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quosdorf, S. et al., Different Inhibitory Potencies of Oseltamivir Carboxylate, Zanamivir, and Several Tannins on Bacterial and Viral Neuraminidases as Assessed in a Cell-Free Fluorescence-Based Enzyme Inhibition Assay. Molecules (2017)

Release Date

2017-11-29

Peptides

Sialidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Sialidase

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