SMTL ID : 4yoi.1

Structure of HKU4 3CLpro bound to non-covalent inhibitor 1A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

homo-dimer

Ligands

2 x 4F4: N-{4-[(1H-benzotriazol-1-ylacetyl)(thiophen-3-ylmethyl)amino]phenyl}thiophene-2-carboxamide(Non-covalent)

4F4.1: 18 residues within 4Å: Chain A: S.24, M.25, H.41, C.44, A.46, L.49, Y.54, F.143, L.144, C.145, C.148, H.166, Q.167, M.168, E.169, D.190, K.191, Q.192 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:M.25, A:L.49, A:E.169 Hydrogen bonds: A:E.169 pi-Stacking: A:H.41 4F4.7: 19 residues within 4Å: Chain B: S.24, M.25, H.41, C.44, A.46, L.49, Y.54, F.143, L.144, C.145, S.147, C.148, H.166, Q.167, M.168, E.169, D.190, K.191, Q.192 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:A.46, B:L.49, B:L.49, B:E.169 Hydrogen bonds: B:E.169 Water bridges: B:H.41, B:Q.192 pi-Stacking: B:H.41

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 3 residues within 4Å: Chain A: T.62, N.63, H.64 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.63 Hydrogen bonds: A:N.63 Water bridges: A:N.63 ACT.3: 2 residues within 4Å: Chain A: K.201, Y.202 No protein-ligand interaction detected (PLIP)

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.4: 6 residues within 4Å: Chain A: N.136, T.138, K.140, T.174, Q.197, D.200 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.136, A:K.140, A:D.200 FMT.5: 3 residues within 4Å: Chain A: D.252, M.253, H.256 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.252 FMT.6: 2 residues within 4Å: Chain A: Q.277, G.278 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.277 FMT.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

St John, S.E. et al., Targeting zoonotic viruses: Structure-based inhibition of the 3C-like protease from bat coronavirus HKU4-The likely reservoir host to the human coronavirus that causes Middle East Respiratory Syndrome (MERS). Bioorg.Med.Chem. (2015)

Release Date

2015-08-05

Peptides

3C-like proteinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3C-like proteinase

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