4Y2C

M300V 3D polymerase mutant of EMCV

4Y2C の概要

• エントリーDOI: 10.2210/pdb4y2c/pdb
• 関連するPDBエントリー: 4NYZ 4NZ0
• 分子名称: Genome polyprotein, GLYCEROL (3 entities in total)
• 機能のキーワード: rna dependent rna polymerase cardiovirus inhibitor resistance, viral protein
• 由来する生物種: Mengo encephalomyocarditis virus
• 細胞内の位置: Protein 2A: Host nucleus . Protein VP2: Virion. Protein VP3: Virion. Protein VP1: Virion. Protein 2B: Host cytoplasmic vesicle membrane ; Peripheral membrane protein ; Cytoplasmic side . Protein 2C: Host cytoplasmic vesicle membrane ; Peripheral membrane protein ; Cytoplasmic side . Protein 3A: Host cytoplasmic vesicle membrane ; Peripheral membrane protein ; Cytoplasmic side . Protein 3B: Virion . Protease 3C: Host cytoplasm . RNA-directed RNA polymerase 3D-POL: Host cytoplasmic vesicle membrane ; Peripheral membrane protein ; Cytoplasmic side : P12296
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 52580.81

構造登録者

Verdaguer, N.,Ferrer-Orta, C.,Vives-Adrian, L. (登録日: 2015-02-09, 公開日: 2015-04-01, 最終更新日: 2024-01-10)

主引用文献

van der Linden, L.,Vives-Adrian, L.,Selisko, B.,Ferrer-Orta, C.,Liu, X.,Lanke, K.,Ulferts, R.,De Palma, A.M.,Tanchis, F.,Goris, N.,Lefebvre, D.,De Clercq, K.,Leyssen, P.,Lacroix, C.,Purstinger, G.,Coutard, B.,Canard, B.,Boehr, D.D.,Arnold, J.J.,Cameron, C.E.,Verdaguer, N.,Neyts, J.,van Kuppeveld, F.J.
The RNA Template Channel of the RNA-Dependent RNA Polymerase as a Target for Development of Antiviral Therapy of Multiple Genera within a Virus Family.
Plos Pathog., 11:e1004733-e1004733, 2015

PubMed Abstract: The genus Enterovirus of the family Picornaviridae contains many important human pathogens (e.g., poliovirus, coxsackievirus, rhinovirus, and enterovirus 71) for which no antiviral drugs are available. The viral RNA-dependent RNA polymerase is an attractive target for antiviral therapy. Nucleoside-based inhibitors have broad-spectrum activity but often exhibit off-target effects. Most non-nucleoside inhibitors (NNIs) target surface cavities, which are structurally more flexible than the nucleotide-binding pocket, and hence have a more narrow spectrum of activity and are more prone to resistance development. Here, we report a novel NNI, GPC-N114 (2,2'-[(4-chloro-1,2-phenylene)bis(oxy)]bis(5-nitro-benzonitrile)) with broad-spectrum activity against enteroviruses and cardioviruses (another genus in the picornavirus family). Surprisingly, coxsackievirus B3 (CVB3) and poliovirus displayed a high genetic barrier to resistance against GPC-N114. By contrast, EMCV, a cardiovirus, rapidly acquired resistance due to mutations in 3Dpol. In vitro polymerase activity assays showed that GPC-N114 i) inhibited the elongation activity of recombinant CVB3 and EMCV 3Dpol, (ii) had reduced activity against EMCV 3Dpol with the resistance mutations, and (iii) was most efficient in inhibiting 3Dpol when added before the RNA template-primer duplex. Elucidation of a crystal structure of the inhibitor bound to CVB3 3Dpol confirmed the RNA-binding channel as the target for GPC-N114. Docking studies of the compound into the crystal structures of the compound-resistant EMCV 3Dpol mutants suggested that the resistant phenotype is due to subtle changes that interfere with the binding of GPC-N114 but not of the RNA template-primer. In conclusion, this study presents the first NNI that targets the RNA template channel of the picornavirus polymerase and identifies a new pocket that can be used for the design of broad-spectrum inhibitors. Moreover, this study provides important new insight into the plasticity of picornavirus polymerases at the template binding site.

PubMed: 25799064
DOI: 10.1371/journal.ppat.1004733

実験手法

X-RAY DIFFRACTION (2.2 Å)