HYCUD: a computational tool for prediction of effective rotational correlation time in flexible proteins.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 25505088.
- Also identified by DOI 10.1093/bioinformatics/btu824.
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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. AVAILABILITY AND IMPLEMENTATION: The source code and documentation are available at www.mpibpc.mpg.de/106144/software. CONTACT: mzwecks@gwdg.de or nare@nmr.mpibpc.mpg.de SUPPLEMENTARY INFORMATION: Supplementary material is available at Bioinformatics online.
Medical subject headings
- Computational Biology
- Ribosomal Proteins
- Rotation
- Software