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- Title
HYCUD: a computational tool for prediction of effective rotational correlation time in flexible proteins.
- Authors
Rezaei-Ghaleh, Nasrollah; Klama, Frederik; Munari, Francesca; Zweckstetter, Markus
- Abstract
Motivation: A large fraction of eukaryotic proteins contain unstructured tails or linkers. The presence of flexible regions allows these systems to experience a high level of mobility facilitating their biological function. The complex nature of protein rotation in such flexible modular systems precludes a straightforward application of hydrodynamic methods to calculate their rotational motional properties. We describe the workflow of HYdrodynamic CoUpling of Domains (HYCUD), a program for prediction of effective rotational correlation times in multidomain proteins. The usage of HYCUD is demonstrated by its application to the ribosomal protein L7/L12. Rotational correlation times predicted by HYCUD might be used to detect molecular switch events mediated by disorder-order transitions in interdomain linkers.
- Subjects
PROTEIN research; BIOMOLECULES; HYDRODYNAMICS; RIBOSOMAL proteins; INITIATION factors (Biochemistry)
- Publication
Bioinformatics, 2015, Vol 31, Issue 8, p1319
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/btu824