Affordable Access

Access to the full text

Prediction of Function Determining and Buried Residues Through Analysis of Saturation Mutagenesis Datasets

Authors
  • Bhasin, Munmun
  • Varadarajan, Raghavan
Type
Published Article
Journal
Frontiers in Molecular Biosciences
Publisher
Frontiers Media SA
Publication Date
Mar 11, 2021
Volume
8
Identifiers
DOI: 10.3389/fmolb.2021.635425
Source
Frontiers
Keywords
Disciplines
  • Molecular Biosciences
  • Original Research
License
Green

Abstract

Mutational scanning can be used to probe effects of large numbers of point mutations on protein function. Positions affected by mutation are primarily at either buried or at exposed residues directly involved in function, hereafter designated as active-site residues. In the absence of prior structural information, it has not been easy to distinguish between these two categories of residues. We curated and analyzed a set of twelve published deep mutational scanning datasets. The analysis revealed differential patterns of mutational sensitivity and substitution preferences at buried and exposed positions. Prediction of buried-sites solely from the mutational sensitivity data was facilitated by incorporating predicted sequence-based accessibility values. For active-site residues we observed mean sensitivity, specificity and accuracy of 61, 90 and 88% respectively. For buried residues the corresponding figures were 59, 90 and 84% while for exposed non active-site residues these were 98, 44 and 82% respectively. We also identified positions which did not follow these general trends and might require further experimental re-validation. This analysis highlights the ability of deep mutational scans to provide important structural and functional insights, even in the absence of three-dimensional structures determined using conventional structure determination techniques, and also discuss some limitations of the methodology.

Report this publication

Statistics

Seen <100 times