SMTL ID : 8j3t.1

Complex structure of human cytomegalovirus protease and a non-covalent small-molecule ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

2 x T1F: (4R)-1-[1-[(S)-[1-cyclopentyl-3-(2-methylphenyl)pyrazol-4-yl]-(4-methylphenyl)methyl]-2-oxidanylidene-pyridin-3-yl]-3-methyl-2-oxidanylidene-N-(3-oxidanylidene-2-azabicyclo[2.2.2]octan-4-yl)imidazolidine-4-carboxamide(Non-covalent)

T1F.1: 16 residues within 4Å: Chain A: E.38, N.69, H.70, S.139, L.140, S.141, S.142, V.170, G.171, R.172, R.173, D.234, I.238, K.244 Chain B: L.113, R.116 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:R.172, A:D.234, A:I.238, A:K.244, B:L.113 Hydrogen bonds: A:L.140, A:S.142, A:S.142, A:R.172, A:R.172 T1F.2: 12 residues within 4Å: Chain A: L.113 Chain B: N.69, H.70, S.139, L.140, S.141, C.168, V.170, G.171, R.172, D.234, I.238 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:D.234, B:I.238, B:I.238, A:L.113 Hydrogen bonds: B:S.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yoshida, S. et al., Peptide-to-Small Molecule: Discovery of Non-Covalent, Active-Site Inhibitors of beta-Herpesvirus Proteases. Acs Med.Chem.Lett. (2023)

Release Date

2023-11-08

Peptides

Assemblin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Assemblin

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