These structural information were computed from DSSP software for secondary structure assignments and side-chain surface accessibilities [ 71].
Circular dichroic analysis is a useful method for secondary structure estimation of protein molecule.
The design of a new biomimetic foldamer, relying on the weak amine carbonyl interaction for secondary structure formation, is presented.
Methods: The Mfold software was used for secondary structure predictions and miRNA-binding sequences were obtained from the PicTar database.
The data were processed using CDtool [27] and analyzed for secondary structure using Dichroweb [28].
Predictive algorithms for secondary structure suggest that GR AF1 has the potential for helical structure.
Next, the proteins used for secondary structure prediction were submitted to Phyre for fold recognition [31].
The notation used for secondary structure was taken from Kamata et al. [7].
PSIPred 2.5 was used with the uniref90 database for secondary structure prediction.
However, the use of a fixed length sequence for secondary structure limits the utility of this approach.
The signature region for secondary structure is the far UV portion of the dichroic spectrum (240 nm–180 nm).
