SMTL ID : 5wkm.1

2.25 A resolution structure of MERS 3CL protease in complex with piperidine-based peptidomimetic inhibitor 21

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x N02: (1S,2S)-2-{[N-({[1-(tert-butoxycarbonyl)-4-ethylpiperidin-4-yl]oxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid(Covalent)

N02.1: 14 residues within 4Å: Chain A: F.150, L.151, C.152, G.153, S.154, C.155, H.173, Q.174, M.175, E.176, H.182, D.197, K.198 Ligands: B6Y.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:F.150, A:G.153, A:C.155, A:Q.174, A:E.176, A:E.176 N02.3: 14 residues within 4Å: Chain B: F.150, L.151, C.152, G.153, S.154, C.155, H.173, Q.174, M.175, E.176, H.182, D.197, K.198 Ligands: B6Y.4 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:F.150, B:G.153, B:C.155, B:Q.174, B:E.176

2 x B6Y: (1R,2S)-2-{[N-({[1-(tert-butoxycarbonyl)-4-ethylpiperidin-4-yl]oxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid(Covalent)

B6Y.2: 15 residues within 4Å: Chain A: H.48, L.56, F.150, L.151, C.152, S.154, C.155, H.173, Q.174, M.175, E.176, H.182, D.197, K.198 Ligands: N02.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.56, A:D.197 Hydrogen bonds: A:F.150, A:S.154, A:Q.174, A:E.176, A:E.176 B6Y.4: 15 residues within 4Å: Chain B: H.48, L.56, F.150, L.151, C.152, S.154, C.155, H.173, Q.174, M.175, E.176, H.182, D.197, K.198 Ligands: N02.3 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.56, B:D.197 Hydrogen bonds: B:F.150, B:S.154, B:Q.174, B:E.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Galasiti Kankanamalage, A.C. et al., Structure-guided design of potent and permeable inhibitors of MERS coronavirus 3CL protease that utilize a piperidine moiety as a novel design element. Eur J Med Chem (2018)

Release Date

2018-04-04

Peptides

Orf1a protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Orf1a protein

Related Entries With Identical Sequence