Proper evaluation of chemical cross-linking-based spatial restraints improves the precision of modeling homo-oligomeric protein complexes.

ABSTRACT:

Background

The function of oligomeric proteins is inherently linked to their quaternary structure. In the absence of high-resolution data, low-resolution information in the form of spatial restraints can significantly contribute to the precision and accuracy of structural models obtained using computational approaches. To obtain such restraints, chemical cross-linking coupled with mass spectrometry (XL-MS) is commonly used. However, the use of XL-MS in the modeling of protein complexes comprised of identical subunits (homo-oligomers) is often hindered by the inherent ambiguity of intra- and inter-subunit connection assignment.

Results

We present a comprehensive evaluation of (1) different methods for inter-residue distance calculations, and (2) different approaches for the s

SUBMITTER: Gaber A 

PROVIDER: S-EPMC6734309 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature