SMTL ID : 9boo.1

Crystal structure of MERS-CoV Nsp5 in complex with PF-07817883

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x YDL: N-(methoxycarbonyl)-3-methyl-L-valyl-(4R)-N-{(1Z,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-4-(trifluoromethyl)-L-prolinamide(Covalent)

YDL.1: 23 residues within 4Å: Chain A: L.27, H.41, L.49, Y.54, F.143, L.144, C.145, G.146, S.147, C.148, H.166, Q.167, M.168, E.169, L.170, H.175, D.190, K.191, Q.192, V.193, H.194, Q.195 Chain B: S.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.49, A:E.169 Hydrogen bonds: A:H.41, A:F.143, A:G.146, A:S.147, A:C.148, A:H.166, A:Q.167, A:E.169, A:E.169, A:E.169, A:V.193 Halogen bonds: A:L.49 YDL.2: 23 residues within 4Å: Chain A: S.1 Chain B: L.27, H.41, L.49, Y.54, F.143, L.144, C.145, G.146, S.147, C.148, H.166, Q.167, M.168, E.169, L.170, H.175, D.190, K.191, Q.192, V.193, H.194, Q.195 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.49, B:E.169 Hydrogen bonds: B:H.41, B:F.143, B:G.146, B:S.147, B:C.148, B:H.166, B:Q.167, B:E.169, B:E.169, B:V.193 Halogen bonds: B:L.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, P. et al., A Structural Comparison of Oral SARS-CoV-2 Drug Candidate Ibuzatrelvir Complexed with the Main Protease (M pro ) of SARS-CoV-2 and MERS-CoV. Jacs Au (2024)

Release Date

2024-08-07

Peptides

3C-like proteinase nsp5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3C-like proteinase nsp5

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