SMTL ID : 5wdn.1

Crystal structure of the influenza virus PA endonuclease in complex with inhibitor 6d (SRI-29680)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: H.41, D.89, E.100, I.101 Ligands: MN.2, G1K.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.41, A:D.89, A:E.100, A:I.101 MN.2: 5 residues within 4Å: Chain A: H.41, E.61, D.89 Ligands: MN.1, G1K.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.61, A:D.89, H2O.1, H2O.1

1 x G1K: 5-hydroxy-6-oxo-2-[(2S)-1-(phenoxyacetyl)pyrrolidin-2-yl]-1,6-dihydropyrimidine-4-carboxylic acid(Non-covalent)

G1K.3: 16 residues within 4Å: Chain A: A.20, M.21, Y.24, E.26, K.34, I.38, H.41, E.61, R.65, D.89, E.100, I.101, Y.111, K.115 Ligands: MN.1, MN.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.24, A:I.38 Hydrogen bonds: A:R.65, A:Y.111 Water bridges: A:R.65, A:R.65, A:K.115 Salt bridges: A:H.41, A:K.115 pi-Stacking: A:Y.24 pi-Cation interactions: A:K.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Beylkin, D. et al., Protein-Structure Assisted Optimization of 4,5-Dihydroxypyrimidine-6-Carboxamide Inhibitors of Influenza Virus Endonuclease. Sci Rep (2017)

Release Date

2018-01-03

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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