SMTL ID : 7lcq.1

N-terminal finger stabilizes feline drug GC376 in coronavirus 3CL protease

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 10 residues within 4Å: Chain A: P.108, G.109, Q.110, I.200, L.202, N.203, I.249, T.292, P.293, F.294 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.203 EDO.2: 4 residues within 4Å: Chain A: Y.118, N.119, L.141 Chain B: R.298 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.298 EDO.4: 10 residues within 4Å: Chain B: P.108, G.109, Q.110, I.200, L.202, N.203, I.249, T.292, P.293, F.294 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.203 EDO.5: 4 residues within 4Å: Chain A: R.298 Chain B: Y.118, N.119, L.141 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.298

2 x UED: N~2~-[(benzyloxy)carbonyl]-N-{(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-leucinamide(Covalent)

UED.3: 18 residues within 4Å: Chain A: L.27, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, H.172, D.187, R.188, Q.189 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.41, A:M.165 Hydrogen bonds: A:G.143, A:C.145, A:H.163, A:H.164, A:E.166, A:E.166, A:E.166, A:H.172, A:Q.189 UED.6: 18 residues within 4Å: Chain B: L.27, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, C.145, H.163, H.164, M.165, E.166, H.172, D.187, R.188, Q.189 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:H.41, B:M.165 Hydrogen bonds: B:G.143, B:C.145, B:H.163, B:H.164, B:E.166, B:E.166, B:H.172, B:Q.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arutyunova, E. et al., N-Terminal Finger Stabilizes the S1 Pocket for the Reversible Feline Drug GC376 in the SARS-CoV-2 M pro Dimer. J.Mol.Biol. (2021)

Release Date

2021-05-12

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase

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