3D molecular models of whole HIV-1 virions generated with cellPACK

Graham T. Johnson, David S. Goodsell, Ludovic Autin, Stefano Forli, Michel F. Sanner, Arthur J. Olson

Research output: Contribution to journalArticle

20 Scopus citations

Abstract

As knowledge of individual biological processes grows, it becomes increasingly useful to frame new findings within their larger biological contexts in order to generate new systems-scale hypotheses. This report highlights two major iterations of a whole virus model of HIV-1, generated with the cellPACK software. cellPACK integrates structural and systems biology data with packing algorithms to assemble comprehensive 3D models of cell-scale structures in molecular detail. This report describes the biological data, modeling parameters and cellPACK methods used to specify and construct editable models for HIV-1. Anticipating that cellPACK interfaces under development will enable researchers from diverse backgrounds to critique and improve the biological models, we discuss how cellPACK can be used as a framework to unify different types of data across all scales of biology. This journal is

Original languageEnglish (US)
Pages (from-to)23-44
Number of pages22
JournalFaraday Discussions
Volume169
DOIs
StatePublished - Nov 1 2014

    Fingerprint

All Science Journal Classification (ASJC) codes

  • Physical and Theoretical Chemistry

Cite this

Johnson, G. T., Goodsell, D. S., Autin, L., Forli, S., Sanner, M. F., & Olson, A. J. (2014). 3D molecular models of whole HIV-1 virions generated with cellPACK. Faraday Discussions, 169, 23-44. https://doi.org/10.1039/c4fd00017j