1ND2

The structure of Rhinovirus 16

Summary for 1ND2

• Entry DOI: 10.2210/pdb1nd2/pdb
• Related: 1NA1 1NCQ 1NCR
• Descriptor: coat protein VP1, coat protein VP2, coat protein VP3, ... (7 entities in total)
• Functional Keywords: hrv 16, rhinovirus, piconaviridae, pocket factor, icosahedral virus, virus
• Biological source: Human rhinovirus 16; More
• Cellular location: Protein VP2: Virion. Protein VP3: Virion. Protein VP1: Virion. Protein 2B: Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side (Potential). Protein 2C: Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side (Potential). Protein 3A: Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side (Potential). Protein 3B: Virion (Potential). Picornain 3C: Host cytoplasm (Potential). RNA-directed RNA polymerase 3D-POL: Host cytoplasmic vesicle membrane; Peripheral membrane protein; Cytoplasmic side (Potential): Q82122 Q82122 Q82122 Q82122
• Total number of polymer chains: 4
• Total formula weight: 95702.33

Authors

Zhang, Y.,Simpson, A.A.,Bator, C.M.,Chakravarty, S.,Pevear, D.C.,Skochko, G.A.,Tull, T.M.,Diana, G.,Rossmann, M.G. (deposition date: 2002-12-06, release date: 2003-12-16, Last modification date: 2024-02-14)

Primary citation

Zhang, Y.,Simpson, A.A.,Ledford, R.M.,Bator, C.M.,Chakravarty, S.,Skochko, G.A.,Demenczuk, T.M.,Watanyar, A.,Pevear, D.C.,Rossmann, M.G.
Structural and virological studies of the stages of virus replication that are affected by antirhinovirus compounds
J.Virol., 78:11061-11069, 2004

PubMed Abstract: Pleconaril is a broad-spectrum antirhinovirus and antienterovirus compound that binds into a hydrophobic pocket within viral protein 1, stabilizing the capsid and resulting in the inhibition of cell attachment and RNA uncoating. When crystals of human rhinovirus 16 (HRV16) and HRV14 are incubated with pleconaril, drug occupancy in the binding pocket is lower than when pleconaril is introduced during assembly prior to crystallization. This effect is far more marked in HRV16 than in HRV14 and is more marked with pleconaril than with other compounds. These observations are consistent with virus yield inhibition studies and radiolabeled drug binding studies showing that the antiviral effect of pleconaril against HRV16 is greater on the infectivity of progeny virions than the parent input viruses. These data suggest that drug integration into the binding pocket during assembly, or at some other late stage in virus replication, may contribute to the antiviral activity of capsid binding compounds.

PubMed: 15452226
DOI: 10.1128/JVI.78.20.11061-11069.2004

Experimental method

X-RAY DIFFRACTION (2.5 Å)