SMTL ID : 7umr.1

The crystal structure of wild type PA endonuclease (2009/H1N1/CALIFORNIA) in complex with compound SJ001034732-1 (trans-form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.53 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, NVR.4 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, NVR.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.81, A:D.109, H2O.1, H2O.1

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

QQ4.3: 5 residues within 4Å: Chain A: N.30, M.32, F.66, I.79, E.81 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.66, A:I.79

1 x NVR: (1P,18Z)-5-hydroxy-16,21-dioxa-3,8,28-triazatetracyclo[20.3.1.1~2,6~.1~11,15~]octacosa-1(26),2(28),5,11(27),12,14,18,22,24-nonaene-4,7-dione(Non-covalent)

NVR.4: 16 residues within 4Å: Chain A: A.40, M.41, Y.44, E.46, K.54, A.57, I.58, H.61, E.81, D.109, E.120, I.121, Y.131, K.135 Ligands: MN.1, MN.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.44, A:Y.44, A:K.54, A:A.57, A:I.58 Hydrogen bonds: A:Y.131, A:Y.131, A:K.135 pi-Stacking: A:Y.44, A:H.61

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

SO4.5: 4 residues within 4Å: Chain A: G.72, S.73, R.76, K.114 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.73 Salt bridges: A:R.76 SO4.6: 6 residues within 4Å: Chain A: I.50, E.51, T.52, N.53, K.54, S.195 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.51, A:T.52, A:T.52, A:N.53, A:N.53, A:K.54, A:S.195

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

2022-10-12

Peptides

Protein PA-X: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein PA-X

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