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Scientific Reports, 2020 Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a highly pathogenic virus that has caused the global COVID-19 pandemic. Tracing the evolution and transmission of the virus is crucial to respond to and control the pandemic through ...
Thanh Thi Nguyen +9 more
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Linkers of secondary structures in proteins [PDF]
Protein Science, 1997 AbstractLinkers that connect repeating secondary structures fall into conformational classes based on distance and main‐chain torsion clustering. A data set of 300 unique protein chains with low pairwise sequence identity was clustered into only a few groups representing the preferred motifs.
V, Geetha, P J, Munson
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ISSEC: inferring contacts among protein secondary structure elements using deep object detection
BMC Bioinformatics, 2020 Background The formation of contacts among protein secondary structure elements (SSEs) is an important step in protein folding as it determines topology of protein tertiary structure; hence, inferring inter-SSE contacts is crucial to protein structure ...
Qi Zhang +6 more
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Pervasive, conserved secondary structure in highly charged protein regions.
PLoS Computational Biology, 2023 Understanding how protein sequences confer function remains a defining challenge in molecular biology. Two approaches have yielded enormous insight yet are often pursued separately: structure-based, where sequence-encoded structures mediate function, and
Catherine G Triandafillou +3 more
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Combining protein evolution and secondary structure [PDF]
Molecular Biology and Evolution, 1996 An evolutionary model that combines protein secondary structure and amino acid replacement is introduced. It allows likelihood analysis of aligned protein sequences and does not require the underlying secondary (or tertiary) structures of these sequences to be known.
J L, Thorne, N, Goldman, D T, Jones
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NMR solution structure of a chymotrypsin inhibitor from the Taiwan cobra Naja naja atra [PDF]
, 2013 The Taiwan cobra (Naja naja atra) chymotrypsin inhibitor (NACI) consists of 57 amino acids and is related to other Kunitz-type inhibitors such as bovine pancreatic trypsin inhibitor (BPTI) and Bungarus fasciatus fraction IX (BF9), another chymotrypsin ...
Chang, Long-Sen +3 more
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Extracting Physicochemical Features to Predict Protein Secondary Structure
The Scientific World Journal, 2013 We propose a protein secondary structure prediction method based on position-specific scoring matrix (PSSM) profiles and four physicochemical features including conformation parameters, net charges, hydrophobic, and side chain mass.
Yin-Fu Huang, Shu-Ying Chen
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Extended secondary structures in proteins
Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 2014 Super secondary structures of proteins have been systematically searched and classified, but not enough attention has been devoted to such large edifices beyond the basic identification of secondary structures. The objective of the present study is to show that the association of secondary structures that share some of their backbone residues is a ...
Degrève, Léo +2 more
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A Hierarchical Approach to Protein Molecular Evolution [PDF]
, 1999 Biological diversity has evolved despite the essentially infinite complexity of protein sequence space. We present a hierarchical approach to the efficient searching of this space and quantify the evolutionary potential of our approach with Monte Carlo ...
Crameri +30 more
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Polish Journal of Food and Nutrition Sciences, 2021 This work aimed to examine the rheological properties and structural features of newly developed gluten-free doughs with maize (M), field bean (FB), maize-filed bean (MFB), and maize-field bean improved with hydrothermally-treated maize (IMFB), and ...
Awatif Fetouhi +7 more
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