Type
ArticleAuthors
Cox, Robert SidneyMcLaughlin, James Alastair
Grunberg, Raik
Beal, Jacob
Wipat, Anil
Sauro, Herbert M.
KAUST Department
Biological and Environmental Sciences and Engineering (BESE) DivisionComputational Bioscience Research Center (CBRC)
Date
2017-03-07Online Publication Date
2017-03-07Print Publication Date
2017-07-21Permanent link to this record
http://hdl.handle.net/10754/625328
Metadata
Show full item recordAbstract
As protein engineering becomes more sophisticated, practitioners increasingly need to share diagrams for communicating protein designs. To this end, we present a draft visual language, Protein Language, that describes the high-level architecture of an engineered protein with easy-to draw glyphs, intended to be compatible with other biological diagram languages such as SBOL Visual and SBGN. Protein Language consists of glyphs for representing important features (e.g., globular domains, recognition and localization sequences, sites of covalent modification, cleavage and catalysis), rules for composing these glyphs to represent complex architectures, and rules constraining the scaling and styling of diagrams. To support Protein Language we have implemented an extensible web-based software diagram tool, Protein Designer, that uses Protein Language in aCitation
Cox RS, McLaughlin JA, Grünberg R, Beal J, Wipat A, et al. (2017) A Visual Language for Protein Design. ACS Synthetic Biology 6: 1120–1123. Available: http://dx.doi.org/10.1021/acssynbio.6b00286.Sponsors
The authors thank Steven Schkolne for consultation on glyph design and Matthew Pocock and Christopher Voigt for helpful discussions. J.A.M. is supported by FUJIFILM DioSynth Technologies. A.W. is supported by the Engineering and Physical Sciences Research Council grant EP/J02175X/1 and EP/N031962/1. RS.C. is supported in part by US DoD grant FA5209-16-P-0041 and National Science Foundation grant DBI-1355909. J.S.B. is supported in part by the National Science Foundation Expeditions in Computing Program Award #1522074 as part of the Living Computing Project. This document does not contain technology or technical data controlled under either the U.S. International Traffic in Arms Regulations or the U.S. Export Administration Regulations.Publisher
American Chemical Society (ACS)Journal
ACS Synthetic BiologyAdditional Links
http://pubs.acs.org/doi/full/10.1021/acssynbio.6b00286ae974a485f413a2113503eed53cd6c53
10.1021/acssynbio.6b00286