SMTL ID : 7nuh.1

Influenza A/California/07/2009(H1N1) endonuclease with I38T mutation in complex with orientin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

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

MN.1: 7 residues within 4Å: Chain A: H.44, D.92, E.103, I.104, K.118 Ligands: MN.2, USE.10 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.44, A:D.92, A:E.103, A:I.104 MN.2: 6 residues within 4Å: Chain A: H.44, E.64, D.92 Ligands: MN.1, MG.3, USE.10 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.64, A:D.92, H2O.2, H2O.2, H2O.6

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: E.64, D.92 Ligands: MN.2, USE.10 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.64, A:D.92, H2O.2, H2O.2, H2O.6

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 6 residues within 4Å: Chain A: F.7, Q.10, C.11, R.158, E.165, R.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.158 Water bridges: A:R.158 PEG.5: 4 residues within 4Å: Chain A: A.23, G.65, R.66, D.67 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.67 Water bridges: A:R.68, A:R.68

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 5 residues within 4Å: Chain A: R.9, Q.10, C.11, F.12, N.13 3 PLIP interactions: 3 interactions with chain A Water bridges: A:C.11, A:F.12, A:N.13 EDO.7: 2 residues within 4Å: Chain A: Y.27 Ligands: USE.10 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain A: S.56, H.58, Y.96 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.56, A:S.56 EDO.9: 4 residues within 4Å: Chain A: L.19, F.49, G.65, R.66 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.65, A:D.67

1 x USE: Orientin(Non-covalent)

USE.10: 20 residues within 4Å: Chain A: A.23, M.24, Y.27, E.29, K.37, A.40, T.41, H.44, E.64, D.92, E.103, I.104, R.108, Y.114, K.118, R.180 Ligands: MN.1, MN.2, MG.3, EDO.7 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.27 Hydrogen bonds: A:K.37, A:K.37, A:R.108, A:Y.114, A:K.118 Water bridges: A:E.179, A:R.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reiberger, R. et al., Synthesis and In Vitro Evaluation of C-7 and C-8 Luteolin Derivatives as Influenza Endonuclease Inhibitors. Int J Mol Sci (2021)

Release Date

2021-07-28

Peptides

Polymerase acidic protein,Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein,Polymerase acidic protein