Results 171 to 180 of about 1,014,642 (191)

Protein secondary structure

International Journal of Peptide and Protein Research, 1982
A secondary structure prediction technique is proposed which includes nucleation site determination through multiplication of conformational preference parameters as well as weighting factors to represent structurally stabilizing short range interactions.
J, Palau, P, Argos, P, Puigdomenech
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Evaluating Predictions of Secondary Structure in Proteins

Biochemical and Biophysical Research Communications, 1994
To learn how secondary structure assignments diverge during divergent evolution, pairs of proteins with solved crystal structures were aligned and their assignments compared as a function of evolutionary distance. Residues assigned in one structure to a helix or a strand are frequently paired with residues assigned in the other to a coil.
T F, Jenny, S A, Benner
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Chemogenomics with Protein Secondary-Structure Mimetics

2009
During molecular recognition of proteins in biological systems, helices, reverse turns, and beta-sheets are dominant motifs. Often there are therapeutic reasons for blocking such recognition sites, and significant progress has been made by medicinal chemists in the design and synthesis of semirigid molecular scaffolds on which to display amino acid ...
Garland R, Marshall, Daniel J, Kuster, Ye, Che   +2 more
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A mathematical model for secondary structure in proteins

13th IEEE International Conference on BioInformatics and BioEngineering, 2013
We propose a new mathematical model for secondary structure in proteins. Our model is inspired by percolation theory on binary strings. What sets us apart from similar work on the subject is our attempt to deviate from a data mining approach (which is mostly the trend is science these days). Therefore, in predicting secondary structures, we make it our
Alexey Nikolaev, Saad Mneimneh
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Recognition of super-secondary structure in proteins

Journal of Molecular Biology, 1984
A procedure to recognize super-secondary structure in protein sequences is described. An idealized template, derived from known super-secondary structures, is used to locate probable sites by matching with secondary structure probability profiles. We applied the method to the identification of beta alpha beta units in beta/alpha type proteins with 75 ...
W R, Taylor, J M, Thornton
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Searching on the Secondary Structure of Protein Sequences

2002
In spite of the many decades of progress in database research, surprisingly scientists in the life sciences community still struggle with inefficient and awkward tools for querying biological data sets. This work highlights a specific problem involving searching large volumes of protein data sets based on their secondary structure.
Laurie Hammel, Jignesh M. Patel
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Secondary structure and rigidity in model proteins

Soft Matter, 2013
There is tremendous interest in understanding the role that secondary structure plays in the rigidity and dynamics of proteins. In this work we analyze nanomechanical properties of proteins chosen to represent different secondary structures: α-helices (myoglobin and bovine serum albumin), β-barrels (green fluorescent protein), and α + β + loop ...
Stefania, Perticaroli, Jonathan D, Nickels, Georg, Ehlers, Hugh, O'Neill, Qui, Zhang, Alexei P, Sokolov   +5 more
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Protein Secondary Structure Analysis in the Cloud

Proceedings of the 6th International Workshop on Parallelism in Bioinformatics, 2018
Many biological problems, such finding recurring geometrical patterns in the secondary structures of protein pairs, are often solved by using parallel applications running on HPC systems that, thanks to their powerful architecture and high number of CPUs, can yield good performance.
Marco Ferretti, Luigi Santangelo
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A model of morphogenesis for protein secondary structures

Journal of Theoretical Biology, 1991
This paper proposes a model for the expected probability distribution for a certain class of biological structures. In particular, a model is derived for the distribution of lengths of helices, sheets, turns, and coils as a function of the length of the structure divided by the length of the protein it is contained in.
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Protein Secondary Structure

2010
There are several methods available that can be used to gain information on secondary structure, apart from X-ray crystallography, which remains the ‘gold standard’.
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