SMTL ID : 5vqn.1

E119D mutant of 2009 H1N1 PA Endonuclease in complex with RO-7

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

MN.1: 8 residues within 4Å: Chain A: H.61, D.109, D.120, I.121, G.122, K.135 Ligands: MN.2, R07.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.61, A:D.109, A:D.120, A:I.121 MN.2: 5 residues within 4Å: Chain A: H.61, E.81, D.109 Ligands: MN.1, R07.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.81, A:D.109, H2O.1, H2O.1

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

SO4.3: 6 residues within 4Å: Chain A: I.50, E.51, T.52, N.53, K.54, S.195 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.51, A:T.52, A:N.53, A:N.53, A:K.54 SO4.4: 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

1 x R07: 1-[(11S)-6,11-dihydrodibenzo[b,e]thiepin-11-yl]-5-hydroxy-3-[(2R)-1,1,1-trifluoropropan-2-yl]-2,3-dihydro-1H-pyrido[2,1-f][1,2,4]triazine-4,6-dione(Non-covalent)

R07.5: 18 residues within 4Å: Chain A: A.40, M.41, Y.44, E.46, K.54, A.57, I.58, H.61, E.81, L.107, D.109, D.120, I.121, G.122, Y.131, K.135 Ligands: MN.1, MN.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.44, A:I.58, A:I.58, A:H.61 Hydrogen bonds: A:K.135 Water bridges: A:L.107, A:P.108 pi-Stacking: A:H.61 Halogen bonds: A:L.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jones, J.C. et al., Identification of the I38T PA Substitution as a Resistance Marker for Next-Generation Influenza Virus Endonuclease Inhibitors. MBio (2018)

Release Date

2018-04-11

Peptides

Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polymerase acidic protein

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