A New Secondary Structure Assignment Algorithm Using Cα Backbone Fragments

A New Secondary Structure Assignment Algorithm Using Cα Backbone Fragments.

The assignment of secondary structure elements in proteins is a key step in the analysis of their structures and functions. We have developed an algorithm, SACF (secondary structure assignment based on Cα fragments), for secondary structure element (SSE) assignment based on the alignment of Cα backbone fragments with central poses derived by clustering known SSE fragments. The assignment algori...

Secondary structure assignment.

Backbone 1H, 15N, and 13C resonance assignment and secondary structure prediction of HP0495 from Helicobacter pylori.

HP0495 (Swiss-Prot ID; Y495_HELPY) is an 86-residue hypothetical protein from Helicobacter pylori strain 26695. The function of HP0495 cannot be identified based on sequence homology, and HP0495 is included in a fairly unique sequence family. Here, we report the sequence-specific backbone resonance assignments of HP0495. About 97% of all the 1HN, 15N, 13Calpha, 13Cbeta, and 13CO resonances were...

Offering a New Algorithm to Improve the Answer-Search Algorithm in Quadratic Assignment Problem

Layout design problem is one of the useful field of study used to increase the efficiency of sources in organizations. In order to achieve an appropriate layout design, it is necessary to define and solve the related nonlinear programming problems. Therefore, using computer in solving the related problems is important in the view of the researchers of this area of study. However, the designs pr...

A new algorithm for RNA secondary structure design.

The function of many RNAs depends crucially on their structure. Therefore, the design of RNA molecules with specific structural properties has many potential applications, e.g. in the context of investigating the function of biological RNAs, of creating new ribozymes, or of designing artificial RNA nanostructures. Here, we present a new algorithm for solving the following RNA secondary structur...