SMTL ID : 7mpf.1

The crystal structure of wild type PA endonuclease (2009/H1N1/CALIFORNIA) in complex with SJ000986436

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: H.61, D.109, E.120, I.121 Ligands: MN.2, R1D.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.61, A:D.109, A:E.120, A:I.121 MN.2: 6 residues within 4Å: Chain A: H.61, E.81, P.108, D.109 Ligands: MN.1, R1D.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.109, H2O.1, H2O.1

1 x R1D: 5-hydroxy-N-[2-(4-hydroxy-3-methoxyphenyl)ethyl]-6-oxo-2-[2-(trifluoromethyl)phenyl]-1,6-dihydropyrimidine-4-carboxamide(Non-covalent)

R1D.3: 12 residues within 4Å: Chain A: Y.44, E.46, A.57, I.58, H.61, D.109, E.120, I.121, G.122, Y.131 Ligands: MN.1, MN.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.44 Hydrogen bonds: A:E.46, A:Y.131, A:Y.131 pi-Stacking: A:Y.44

1 x QQ4: Hexa Vinylpyrrolidone K15(Non-covalent)

QQ4.4: 4 residues within 4Å: Chain A: M.32, F.66, S.69, I.79 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.66, A:I.79 Hydrogen bonds: A:S.69

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

SO4.5: 4 residues within 4Å: Chain A: G.72, S.73, R.76, K.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.73, A:S.73 Salt bridges: A:R.76, A:K.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Slavish, P.J. et al., Chemical scaffold recycling: Structure-guided conversion of an HIV integrase inhibitor into a potent influenza virus RNA-dependent RNA polymerase inhibitor designed to minimize resistance potential. Eur.J.Med.Chem. (2023)

Release Date

2022-05-04

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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