SMTL ID : 8edz.1

The crystal structure of I38T mutant PA endonuclease (2009/H1N1/CALIFORNIA) in complex with compound SJ000986319

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

1 x WFW: benzyl [2-(6-{[2-(4-amino-7H-pyrrolo[2,3-d]pyrimidin-7-yl)ethyl]carbamoyl}-5-hydroxy-4-oxo-1,4-dihydropyrimidin-2-yl)propan-2-yl]carbamate(Non-covalent)

WFW.1: 13 residues within 4Å: Chain A: A.40, Y.44, E.46, H.61, E.81, L.107, D.109, E.120, I.121, Y.131, K.135 Ligands: MN.3, MN.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.46, A:Y.131, A:K.135 Water bridges: A:E.81, A:L.107, A:V.123 pi-Stacking: A:Y.44, A:Y.44, A:H.61

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

QQ4.2: 6 residues within 4Å: Chain A: N.30, M.32, L.36, F.66, I.79, E.81 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.66, A:F.66, A:I.79 Hydrogen bonds: A:N.30

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

MN.3: 5 residues within 4Å: Chain A: H.61, E.81, D.109 Ligands: WFW.1, MN.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 MN.4: 6 residues within 4Å: Chain A: H.61, D.109, E.120, I.121 Ligands: WFW.1, MN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.61, A:D.109, A:E.120, A:I.121

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

SO4.5: 5 residues within 4Å: Chain A: E.51, T.52, N.53, K.54, S.195 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.53, A:K.54, A:S.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cuypers, M.G. et al., The crystal structure of I38T mutant PA endonuclease (2009/H1N1/CALIFORNIA) in complex with compound SJ000986319. To Be Published

Release Date

2022-10-05

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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