SMTL ID : 9ghn.1

Structure of SARS-CoV-2 Main Protease (Mpro) with mutation of Q256A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: H.64, N.65 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.65, A:N.65 EDO.4: 5 residues within 4Å: Chain B: D.48, N.51, P.52, N.53, L.57 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.48, B:D.48, B:N.53 EDO.5: 2 residues within 4Å: Chain B: P.252, V.297 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 4 residues within 4Å: Chain A: L.75, R.76, D.92, T.93 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain B: L.167, P.168, T.169, A.193, A.194 Ligand excluded by PLIP

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 5 residues within 4Å: Chain A: L.167, P.168, T.169, A.193, A.194 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.169, A:T.169, A:A.194 NA.7: 4 residues within 4Å: Chain A: A.285, L.286 Chain B: A.285, L.286 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:A.285, A:L.286, B:A.285, B:L.286 Water bridges: A:S.284, A:S.284, B:S.284, B:S.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Creon, A. et al., Structure of SARS-CoV-2 Main Protease (Mpro) with mutation of Q256A. To Be Published

Release Date

2025-09-03

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase nsp5