AutoRNC: An automated modeling program for building atomic models of ribosome-nascent chain complexes.

ABSTRACT: The interpretation of experimental studies of co-translational protein folding often benefits from the use of computational methods that seek to model or simulate the nascent chain and its interactions with the ribosome. Building realistic 3D models of ribosome-nascent chain (RNC) constructs often requires expert knowledge, so to circumvent this issue, we describe here AutoRNC, an automated modeling program capable of constructing large numbers of plausible atomic models of RNCs within minutes. AutoRNC takes input from the user specifying any regions of the nascent chain that contain secondary or tertiary structure and attempts to build conformations compatible with those specifications-and with the constraints imposed by the ribosome-by sampling and progressively piecing together dipeptid

SUBMITTER: McDonnell RT 

PROVIDER: S-EPMC11073581 | biostudies-literature | 2024 May

REPOSITORIES: biostudies-literature