Folding by Consensus

Folding by consensus.

Consensus for the Fip35 folding mechanism?

Recent advances in computational power and simulation programs finally delivered the first examples of reversible folding for small proteins with an all-atom description. But having at hand the atomistic details of the process did not lead to a straightforward interpretation of the mechanism. For the case of the Fip35 WW-domain where multiple long trajectories of 100 μs are available from D. E....

Consensus Folding of Unaligned RNA Sequences Revisited

As one of the earliest problems in computational biology, RNA secondary structure prediction (sometimes referred to as "RNA folding") problem has attracted attention again, thanks to the recent discoveries of many novel non-coding RNA molecules. The two common approaches to this problem are de novo prediction of RNA secondary structure based on energy minimization and the consensus folding appr...

Protein Folding Trajectories Analysis: Summarization, Event Detection and Consensus Partial Folding Pathway Identification

Molecular dynamics simulations are employed to explain the formation of 3D protein structures, a fundamental yet unsolved problem in computational molecular biology. Effective comparison and representation of the simulation data is a major step in understanding and characterizing the folding process. In this paper, we explore the use of spatio-temporal association patterns to discover meaningfu...

The folding and design of repeat proteins: reaching a consensus.

Although they are widely distributed across kingdoms and are involved in a myriad of essential processes, until recently, repeat proteins have received little attention in comparison to globular proteins. As the name indicates, repeat proteins contain strings of tandem repeats of a basic structural element. In this respect, their construction is quite different from that of globular proteins, i...