SMTL ID : 7d1o.1

Crystal structure of SARS-Cov-2 main protease with narlaprevir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-dimer

Ligands

2 x NNA: (1R,2S,5S)-3-[N-({1-[(tert-butylsulfonyl)methyl]cyclohexyl}carbamoyl)-3-methyl-L-valyl]-N-{(1S)-1-[(1R)-2-(cyclopropylamino)-1-hydroxy-2-oxoethyl]pentyl}-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxamide(Covalent)

NNA.1: 23 residues within 4Å: Chain A: T.25, T.26, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.164, M.165, E.166, L.167, P.168, V.186, D.187, R.188, Q.189, T.190, A.191, Q.192 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:T.25, A:H.41, A:M.165, A:E.166, A:L.167, A:D.187 Hydrogen bonds: A:G.143, A:S.144, A:C.145, A:H.164, A:E.166, A:E.166, A:E.166 NNA.2: 23 residues within 4Å: Chain B: T.25, T.26, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.164, M.165, E.166, L.167, P.168, V.186, D.187, R.188, Q.189, T.190, A.191, Q.192 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:T.25, B:H.41, B:M.165, B:E.166, B:L.167, B:D.187 Hydrogen bonds: B:G.143, B:S.144, B:C.145, B:H.164, B:E.166, B:E.166, B:E.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bai, Y. et al., Structural basis for the inhibition of the SARS-CoV-2 main protease by the anti-HCV drug narlaprevir. Signal Transduct Target Ther (2021)

Release Date

2020-09-23

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase

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