SMTL ID : 4w9s.1

2-(4-(1H-tetrazol-5-yl)phenyl)-5-hydroxypyrimidin-4(3H)-one bound to influenza 2009 H1N1 endonuclease

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

MN.1: 8 residues within 4Å: Chain A: H.78, D.145, E.156, I.157, G.158, K.171 Ligands: MN.2, 3K1.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.78, A:D.145, A:E.156, A:I.157 MN.2: 5 residues within 4Å: Chain A: H.78, E.117, D.145 Ligands: MN.1, 3K1.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.117, A:D.145, H2O.3, H2O.3, H2O.5

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

SO4.3: 5 residues within 4Å: Chain A: I.67, E.68, T.69, N.70, K.71 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.67, A:T.69, A:T.69, A:N.70, A:N.70 SO4.5: 6 residues within 4Å: Chain A: R.43, Q.44, C.45, F.46, N.47, P.48 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.44, A:F.46

1 x 3K1: 5-hydroxy-2-[4-(1H-tetrazol-5-yl)phenyl]pyrimidin-4(3H)-one(Non-covalent)

3K1.4: 14 residues within 4Å: Chain A: K.71, A.74, I.75, H.78, E.117, D.145, E.156, I.157, G.158, R.161, Y.167, K.171 Ligands: MN.1, MN.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:A.74, A:I.75 Hydrogen bonds: A:D.145, A:R.161, A:R.161, A:K.171 Water bridges: A:I.157, A:V.159, A:Y.167, A:Y.167, A:Y.167 pi-Cation interactions: A:H.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sagong, H.Y. et al., Phenyl Substituted 4-Hydroxypyridazin-3(2H)-ones and 5-Hydroxypyrimidin-4(3H)-ones: Inhibitors of Influenza A Endonuclease. J.Med.Chem. (2014)

Release Date

2014-10-01

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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