Reconstruction of Protein Backbones from the BriX Collection of Canonical Protein Fragments
Author Information
Author(s): Baeten Lies, Reumers Joke, Tur Vicente, Stricher François, Lenaerts Tom, Serrano Luis, Rousseau Frederic, Schymkowitz Joost
Primary Institution: Vrije Universiteit Brussels
Hypothesis
Can recurrent protein fragments be identified and used to reconstruct protein structures efficiently?
Conclusion
The BriX database allows for the reconstruction of protein structures with high accuracy, achieving an average RMSD of 0.48 Angstrom.
Supporting Evidence
- The BriX database contains over 1,000 recurrent protein structures identified from 260,000 fragments.
- An average structural coverage of more than 99% was achieved within a root mean square distance of 1 Angstrom.
- Loop regions that appear irregular can be reconstructed from smaller building blocks.
Takeaway
Scientists created a library of small protein pieces to help build the shapes of proteins, making it easier to understand how they work.
Methodology
A multi-step clustering approach was used to identify recurrent protein structures from a non-redundant set of high-resolution protein structures.
Limitations
The study may not cover all protein structures, especially those with low sequence identity.
Digital Object Identifier (DOI)
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