SMTL ID : 7tq7.1

Structure of MERS 3CL protease in complex with the cyclopropane based inhibitor 13c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x IRR: N-{(2S)-1-oxo-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-N~2~-({[(1R,2R)-2-propylcyclopropyl]methoxy}carbonyl)-L-leucinamide(Covalent)

IRR.1: 18 residues within 4Å: Chain A: H.48, L.56, F.150, L.151, C.152, G.153, S.154, C.155, H.173, Q.174, M.175, E.176, L.177, H.182, D.197, Q.199, V.200, H.201 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Q.199 Hydrogen bonds: A:F.150, A:G.153, A:S.154, A:S.154, A:C.155, A:Q.174, A:E.176, A:E.176, A:Q.199 Water bridges: A:Q.199 IRR.3: 18 residues within 4Å: Chain B: H.48, L.56, F.150, L.151, C.152, G.153, S.154, C.155, H.173, Q.174, M.175, E.176, L.177, H.182, D.197, Q.199, V.200, H.201 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Q.199 Hydrogen bonds: B:F.150, B:G.153, B:S.154, B:S.154, B:C.155, B:Q.174, B:E.176, B:Q.199 Water bridges: B:Q.199

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 5 residues within 4Å: Chain A: M.13, S.14, H.15, M.305 Chain B: T.133 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.15, A:D.302, A:Q.306 PG4.4: 5 residues within 4Å: Chain A: T.133 Chain B: M.13, S.14, H.15, M.305 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Q.306

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dampalla, C.S. et al., Broad-Spectrum Cyclopropane-Based Inhibitors of Coronavirus 3C-like Proteases: Biochemical, Structural, and Virological Studies. Acs Pharmacol Transl Sci (2023)

Release Date

2022-02-09

Peptides

Orf1a protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Orf1a protein

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