SMTL ID : 7t3z.1

Structure of MERS 3CL protease in complex with inhibitor 9c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x FHS: (1S,2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]-2-{[N-({[7-(phenylacetyl)-7-azaspiro[3.5]nonan-2-yl]oxy}carbonyl)-L-leucyl]amino}propane-1-sulfonic acid(Covalent)

FHS.1: 19 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, A.178, H.182, D.197, K.198, Q.199 Ligands: FEY.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:H.48, A:L.56, A:E.176, A:E.176 Hydrogen bonds: A:G.153, A:S.154, A:S.154, A:C.155, A:Q.174, A:E.176, A:E.176, A:E.176, A:Q.199 FHS.3: 17 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, H.182, D.197, K.198, Q.199 Ligands: FEY.4 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.56 Hydrogen bonds: B:F.150, B:G.153, B:S.154, B:C.155, B:Q.174, B:E.176, B:Q.199

2 x FEY: (1R,2S)-2-{[N-({[(2r,4R)-7-acetyl-7-azaspiro[3.5]non-5-en-2-yl]oxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid(Covalent)

FEY.2: 19 residues within 4Å: Chain A: H.48, L.56, Y.61, F.150, L.151, C.152, S.154, C.155, H.173, Q.174, M.175, E.176, L.177, A.178, H.182, D.197, K.198, Q.199 Ligands: FHS.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:H.48, A:L.56, A:E.176, A:E.176 Hydrogen bonds: A:S.154, A:Q.174, A:E.176, A:E.176, A:E.176, A:Q.199 Water bridges: A:H.48, A:G.153 FEY.4: 16 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, Q.199 Ligands: FHS.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.56, B:E.176 Hydrogen bonds: B:F.150, B:Q.174, B:E.176, B:Q.199 Water bridges: B:G.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dampalla, C.S. et al., Structure-Guided Design of Potent Spirocyclic Inhibitors of Severe Acute Respiratory Syndrome Coronavirus-2 3C-like Protease. J.Med.Chem. (2022)

Release Date

2021-12-22

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

Related Entries With Identical Sequence