SMTL ID : 6nem.2 (1 other biounit)

3-hydroxy-5-[(naphthalen-1-yl)methyl]-6-[4-(1H-tetrazol-5-yl)phenyl]pyridin-2(1H)-one bound to influenza 2009 pH1N1 endonuclease

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 7 residues within 4Å: Chain A: H.78, D.145, E.156, I.157, K.171 Ligands: MN.2, KKS.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, KKS.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.117, A:D.145, H2O.1, H2O.2, H2O.4 MN.3: 5 residues within 4Å: Chain A: F.90, H.111 Chain B: F.90, H.111 Ligands: MN.8 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.111, B:H.111, H2O.1, H2O.5, H2O.5 MN.6: 7 residues within 4Å: Chain B: H.78, D.145, E.156, I.157, K.171 Ligands: MN.7, KKS.9 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.78, B:D.145, B:E.156, B:I.157 MN.7: 5 residues within 4Å: Chain B: H.78, E.117, D.145 Ligands: MN.6, KKS.9 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.117, B:D.145, H2O.6, H2O.7, H2O.8 MN.8: 5 residues within 4Å: Chain A: F.90, H.111 Chain B: F.90, H.111 Ligands: MN.3 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.111, B:H.111, H2O.1, H2O.5, H2O.5

2 x KKS: 3-hydroxy-5-[(naphthalen-1-yl)methyl]-6-[4-(1H-tetrazol-5-yl)phenyl]pyridin-2(1H)-one(Non-covalent)

KKS.4: 20 residues within 4Å: Chain A: A.54, A.57, M.58, Y.61, K.71, A.74, I.75, H.78, E.117, D.145, E.156, I.157, G.158, R.161, Y.167, K.171, S.231, E.232 Ligands: MN.1, MN.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:A.57, A:Y.61, A:A.74, A:I.75 Hydrogen bonds: A:R.161, A:R.161, A:Y.167, A:K.171 Water bridges: A:E.156, A:Y.167 pi-Stacking: A:Y.61 pi-Cation interactions: A:H.78 KKS.9: 20 residues within 4Å: Chain B: A.54, A.57, M.58, Y.61, K.71, A.74, I.75, H.78, E.117, D.145, E.156, I.157, G.158, R.161, Y.167, K.171, S.231, E.232 Ligands: MN.6, MN.7 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.57, B:Y.61, B:A.74, B:I.75 Hydrogen bonds: B:R.161, B:R.161, B:Y.167, B:K.171 Water bridges: B:E.156, B:Y.167 pi-Stacking: B:Y.61 pi-Cation interactions: B:H.78

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

SO4.5: 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:N.70, A:N.70 Water bridges: A:E.68 SO4.10: 5 residues within 4Å: Chain B: I.67, E.68, T.69, N.70, K.71 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.67, B:T.69, B:N.70, B:N.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sagong, H.Y. et al., Aryl and Arylalkyl Substituted 3-Hydroxypyridin-2(1H)-ones: Synthesis and Evaluation as Inhibitors of Influenza A Endonuclease. Chemmedchem (2019)

Release Date

2019-05-01

Peptides

Polymerase acidic protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Polymerase acidic protein

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