SMTL ID : 4yyl.1

Phenolic acid derivative bound to influenza strain H1N1 polymerase subunit PA endonuclease

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

monomer

Ligands

3 x 4KN: 2-(4-fluorophenoxy)-1-(2,3,4-trihydroxyphenyl)ethanone(Non-covalent)

4KN.1: 13 residues within 4Å: Chain A: Y.29, H.46, E.65, R.69, F.90, L.91, D.93, E.104, I.105, K.119 Ligands: 4KN.2, MN.4, MN.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.29 Hydrogen bonds: A:K.119 4KN.2: 13 residues within 4Å: Chain A: T.25, E.31, K.39, A.42, I.43, H.46, E.65, G.106, V.107, Y.115 Ligands: 4KN.1, 4KN.3, MN.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.25, A:I.43, A:H.46 Hydrogen bonds: A:V.107, A:V.107, A:Y.115 Water bridges: A:L.47 Halogen bonds: A:E.31 4KN.3: 12 residues within 4Å: Chain A: E.36, N.38, K.39, A.42, V.107, T.108, R.109, F.135, F.176, S.179, E.180 Ligands: 4KN.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:N.38, A:K.39, A:A.42, A:F.176, A:F.176, A:E.180, A:E.180 Hydrogen bonds: A:E.36, A:E.36, A:R.181

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 8 residues within 4Å: Chain A: H.46, D.93, E.104, I.105, K.119 Ligands: 4KN.1, 4KN.2, MN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.46, A:D.93, A:E.104, A:I.105 MN.5: 5 residues within 4Å: Chain A: H.46, E.65, D.93 Ligands: 4KN.1, MN.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.65, A:D.93, H2O.2, H2O.3

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 4 residues within 4Å: Chain A: R.109, R.164, W.173, R.177 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.173 Water bridges: A:R.109 Salt bridges: A:R.109, A:R.164, A:R.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fudo, S. et al., Structural and computational study on inhibitory compounds for endonuclease activity of influenza virus polymerase. Bioorg.Med.Chem. (2015)

Release Date

2015-04-29

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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