SMTL ID : 7oa4.3 (3 other biounits)

Crystal structure of the N-terminal endonuclease domain of La Crosse virus L-protein bound to compound L-742,001

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

1 x 0N8: (2Z)-4-[1-benzyl-4-(4-chlorobenzyl)piperidin-4-yl]-2-hydroxy-4-oxobut-2-enoic acid(Non-covalent)

0N8.1: 15 residues within 4Å: Chain A: L.31, M.32, H.35, D.53, H.76, I.77, T.78, D.80, D.93, Y.94, K.95, K.109 Ligands: FMT.3, MN.4, MN.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.35 Salt bridges: A:H.35, A:K.95 pi-Stacking: A:H.35

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 7 residues within 4Å: Chain A: N.100, S.103, I.129, R.131, H.140, I.141, N.142 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.103, A:S.103, A:R.131, A:R.131 FMT.3: 5 residues within 4Å: Chain A: M.32, D.36, N.52, D.53 Ligands: 0N8.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.52 Water bridges: A:D.36, A:D.53

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

MN.4: 7 residues within 4Å: Chain A: H.35, D.80, D.93, Y.94, K.95 Ligands: 0N8.1, MN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.35, A:D.80, A:D.93, A:Y.94 MN.5: 5 residues within 4Å: Chain A: H.35, D.53, D.80 Ligands: 0N8.1, MN.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.53, A:D.80, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Feracci, M. et al., Biophysical and structural study of La Crosse virus endonuclease inhibition for the development of new antiviral options. Iucrj (2024)

Release Date

2022-08-03

Peptides

N-terminal endonuclease domain of La Crosse virus L-protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
DDD

N-terminal endonuclease domain of La Crosse virus L-protein

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