SMTL ID : 7mb5.1

SARS-CoV-2 Main Protease (Mpro) C145A in Complex with Cleavage Site Nsp5/6 (P6-P1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

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

SER-GLY-VAL-THR-PHE-GLN.1: 27 residues within 4Å: Chain A: L.27, H.41, C.44, D.48, M.49, P.52, 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, A.191, Q.192 Chain B: S.1 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:H.41, A:M.165, A:L.167, A:Q.189, A:Q.192 Hydrogen bonds: A:H.41, A:F.140, A:G.143, A:A.145, A:H.163, A:H.164, A:E.166, A:E.166, A:E.166, A:H.172, A:Q.189, A:T.190 Water bridges: A:N.142, A:P.168, A:Q.192 Salt bridges: A:H.41 pi-Stacking: A:H.41 SER-GLY-VAL-THR-PHE-GLN.2: 25 residues within 4Å: Chain A: S.1 Chain B: L.27, H.41, M.49, 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, V.186, D.187, R.188, Q.189, T.190, A.191, Q.192, A.193 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:M.165, B:L.167, B:D.187, B:Q.192 Hydrogen bonds: B:H.41, B:F.140, B:G.143, B:A.145, B:H.163, B:H.164, B:E.166, B:E.166, B:Q.189, B:T.190, B:Q.192, B:Q.192 Water bridges: B:E.166 Salt bridges: B:H.41 pi-Stacking: B:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaqra, A.M. et al., Defining the substrate envelope of SARS-CoV-2 main protease to predict and avoid drug resistance. Nat Commun (2022)

Release Date

2022-06-22

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

3C-like proteinase

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