SMTL ID : 7mgs.1

SARS-CoV-2 main protease in complex with N-terminal autoprocessing substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-dimer

Ligands

2 x SER- ALA- VAL- LEU- GLN- SER- GLY- PHE: SER-ALA-VAL-LEU-GLN-SER-GLY-PHE(Non-covalent)

SER-ALA-VAL-LEU-GLN-SER-GLY-PHE.1: 24 residues within 4Å: Chain A: T.24, T.25, T.26, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, A.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:H.41, A:M.165, A:L.167 Hydrogen bonds: A:T.26, A:T.26, A:H.41, A:F.140, A:N.142, A:G.143, A:S.144, A:S.144, A:A.145, A:H.164, A:E.166, A:E.166, A:E.166, A:T.190 SER-ALA-VAL-LEU-GLN-SER-GLY-PHE.3: 24 residues within 4Å: Chain B: T.24, T.25, T.26, H.41, M.49, Y.54, F.140, L.141, N.142, G.143, S.144, A.145, H.163, H.164, M.165, E.166, L.167, P.168, H.172, D.187, R.188, Q.189, T.190, Q.192 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:H.41, B:M.165, B:L.167 Hydrogen bonds: B:T.26, B:T.26, B:H.41, B:F.140, B:N.142, B:G.143, B:S.144, B:S.144, B:A.145, B:H.164, B:E.166, B:E.166, B:E.166, B:T.190

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

CL.2: 5 residues within 4Å: Chain A: S.284, A.285 Chain B: S.284, A.285 Ligands: CL.4 Ligand excluded by PLIP CL.4: 5 residues within 4Å: Chain A: S.284, A.285 Chain B: S.284, A.285 Ligands: CL.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

MacDonald, E.A. et al., Recognition of Divergent Viral Substrates by the SARS-CoV-2 Main Protease. Acs Infect Dis. (2021)

Release Date

2021-06-23

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase

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