Protein surface printer for exploring protein domains

Yang Li, Baofu Qiao*, Monica Olvera de la Cruz

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

Abstract

The surface of proteins is vital in determining protein functions. Herein, a program, Protein Surface Printer (PSP), is built that performs multiple functions in quantifying protein surface domains. Two proteins, PETase and cytochrome P450, are used to validate that the program supports atomistic simulations with different combinations of programs and force fields. A case study is conducted on the structural analysis of the spike proteins of SARS-CoV-2 and SARS-CoV and the human cell receptor ACE2. Although the surface domains of both spike proteins are highly similar, their receptor-binding domains (RBDs) and the O-linked glycan domains are structurally different. The O-linked glycan domain of SARS-CoV-2 is highly positively charged, which may promote binding to negatively charged human cells.

Original languageEnglish (US)
Pages (from-to)5255-5264
Number of pages10
JournalJournal of Chemical Information and Modeling
Volume60
Issue number10
DOIs
StatePublished - Oct 26 2020

ASJC Scopus subject areas

  • Chemistry(all)
  • Chemical Engineering(all)
  • Computer Science Applications
  • Library and Information Sciences

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