SMTL ID : 6fv2.2 (2 other biounits)

Structure of human coronavirus NL63 main protease in complex with the alpha-ketoamide (S)-N-benzyl-3-((S)-2-cinnamamido-3-phenylpropanamido)-2-oxo-4-((S)-2-oxopyrrolidin-3-yl)butanamide (cinnamoyl-phenylalanine-GlnLactam-CO-CO-NH-benzyl)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 1 residues within 4Å: Chain A: R.40 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.40, A:R.40

1 x D03: (S)-N-benzyl-3-((S)-2-cinnamamido-3-phenylpropanamido)-2-oxo-4-((S)-2-oxopyrrolidin-3-yl)butanamide(Covalent)

D03.2: 21 residues within 4Å: Chain A: T.25, V.26, H.41, T.47, F.139, I.140, N.141, G.142, A.143, C.144, H.163, I.165, E.166, L.167, G.168, H.172, D.187, Q.188, P.189, S.190, Q.192 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.47, A:I.165, A:P.189 Hydrogen bonds: A:F.139, A:N.141, A:G.142, A:C.144, A:Q.164, A:E.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, L. et al., Alpha-ketoamides as broad-spectrum inhibitors of coronavirus and enterovirus replication Structure-based design, synthesis, and activity assessment. J.Med.Chem. (2020)

Release Date

2019-03-20

Peptides

3C-like proteinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

3C-like proteinase

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