SMTL ID : 4yo9.1

HKU4 3CLpro unbound structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: L.27, H.41, C.148 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.41, A:C.148

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

ACT.2: 2 residues within 4Å: Chain A: D.200, Y.202 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.200 ACT.3: 7 residues within 4Å: Chain A: Y.121, S.142, F.143, L.144 Chain B: M.6, M.298, Q.299 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.121 Hydrogen bonds: A:Y.121 Water bridges: A:F.143 ACT.7: 4 residues within 4Å: Chain B: R.134, D.200, K.201, Y.202 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.140 ACT.8: 3 residues within 4Å: Chain B: N.297, M.298, M.301 No protein-ligand interaction detected (PLIP)

3 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 3 residues within 4Å: Chain A: T.126 Chain B: S.7, M.298 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.7 IPA.9: 2 residues within 4Å: Chain B: T.108, D.181 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:D.181 IPA.10: 8 residues within 4Å: Chain B: M.6, S.114, F.115, S.116, T.130, Y.153, T.154, D.295 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.154 Hydrogen bonds: B:T.130

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.5: 6 residues within 4Å: Chain A: G.11, N.15 Chain B: G.11, E.14, N.15, G.73 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:E.14 Hydrogen bonds: B:G.11, B:N.15, A:N.15 Water bridges: B:N.15

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.6: 3 residues within 4Å: Chain A: R.227, S.261, E.263 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.227, A:E.263, A:E.263 Hydrogen bonds: A:R.227, A:R.227, A:S.261

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

FMT.11: 3 residues within 4Å: Chain B: T.62, N.63, H.64 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.64, B:H.64

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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