SMTL ID : 7d1m.1

CRYSTAL STRUCTURE OF THE SARS-CoV-2 MAIN PROTEASE COMPLEXED WITH GC376

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-dimer

Ligands

2 x K36: (1S,2S)-2-({N-[(benzyloxy)carbonyl]-L-leucyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid(Covalent)

K36.1: 19 residues within 4Å: Chain A: H.42, M.50, F.141, L.142, N.143, G.144, S.145, C.146, H.164, H.165, M.166, E.167, P.169, H.173, D.188, R.189, Q.190, T.191, A.192 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:H.42, A:M.50, A:P.169 Hydrogen bonds: A:F.141, A:G.144, A:S.145, A:S.145, A:C.146, A:H.165, A:E.167, A:Q.190, A:Q.190 Water bridges: A:H.42 K36.3: 15 residues within 4Å: Chain B: H.42, F.141, L.142, N.143, G.144, S.145, C.146, H.164, H.165, M.166, E.167, H.173, D.188, R.189, Q.190 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:H.42 Hydrogen bonds: B:F.141, B:G.144, B:S.145, B:C.146, B:H.165, B:E.167, B:Q.190, B:Q.190

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

DMS.2: 3 residues within 4Å: Chain A: K.6 Chain B: R.5, K.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, L. et al., Both Boceprevir and GC376 efficaciously inhibit SARS-CoV-2 by targeting its main protease. Nat Commun (2020)

Release Date

2020-10-28

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

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