SMTL ID : 6ws3.1

The crystal structure of the 2009/H1N1/California PA endonuclease wild type bound to DNA oligomers TG and AGCA (from cleaved GTGAGCAGTG)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: E.154, E.155, Y.162, R.169, K.173 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.155, A:E.155, A:Y.162, A:R.169, A:K.173 GOL.2: 4 residues within 4Å: Chain A: S.19, H.20, M.21, L.188 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.18, A:H.20, A:M.21

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

MN.3: 5 residues within 4Å: Chain A: H.61, D.109, E.120, I.121 Chain C: A.4 No protein-ligand interaction detected (PLIP)

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

SO4.4: 6 residues within 4Å: Chain A: I.50, E.51, T.52, N.53, K.54, S.195 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.52, A:N.53, A:N.53, A:K.54, A:S.195 Water bridges: A:S.191 SO4.5: 4 residues within 4Å: Chain A: G.72, S.73, R.76, K.114 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.73, A:S.73 Water bridges: A:G.71 Salt bridges: A:R.76, A:K.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, G. et al., Structural insights into the substrate specificity of the endonuclease activity of the influenza virus cap-snatching mechanism. Nucleic Acids Res. (2021)

Release Date

2021-02-03

Peptides

Protein PA-X,Polymerase acidic protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein PA-X,Polymerase acidic protein

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