SMTL ID : 4mds.1

Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: identification of ML300 and non-covalent nanomolar inhibitors with an induced-fit binding

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x 23H: N-[4-(acetylamino)phenyl]-2-(1H-benzotriazol-1-yl)-N-[(1R)-2-[(2-methylbutan-2-yl)amino]-1-(1-methyl-1H-pyrrol-2-yl)-2-oxoethyl]acetamide(Non-covalent)

23H.1: 18 residues within 4Å: Chain A: H.41, C.44, T.45, A.46, M.49, F.140, L.141, N.142, S.144, C.145, H.163, H.164, M.165, E.166, L.167, P.168, R.188, Q.189 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Q.189 Hydrogen bonds: A:E.166, A:E.166 Water bridges: A:H.41, A:H.41 pi-Stacking: A:H.41 23H.4: 18 residues within 4Å: Chain B: H.41, C.44, T.45, A.46, M.49, F.140, L.141, N.142, S.144, C.145, H.163, H.164, M.165, E.166, L.167, P.168, R.188, Q.189 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.189 Hydrogen bonds: B:E.166, B:E.166 Water bridges: B:H.41, B:H.41 pi-Stacking: B:H.41

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 7 residues within 4Å: Chain A: C.22, G.23, T.24, T.25, V.42, I.43, C.44 1 PLIP interactions: 1 interactions with chain A Water bridges: A:C.44 DMS.3: 3 residues within 4Å: Chain A: R.40, N.84, C.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.40 DMS.5: 7 residues within 4Å: Chain B: C.22, G.23, T.24, T.25, V.42, I.43, C.44 1 PLIP interactions: 1 interactions with chain B Water bridges: B:T.25 DMS.6: 3 residues within 4Å: Chain B: R.40, N.84, C.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Turlington, M. et al., Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: Identification of ML300 and noncovalent nanomolar inhibitors with an induced-fit binding. Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-10-02

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase