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Improved secondary structure predictions for a nicotinic receptor subunit: Incorporation of solvent accessibility and experimental data into a two-dimensional representation
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Abstract A refined prediction of the nicotinic acetylcholine receptor (nAChR) subunits' secondary structure was computed with third-generation algorithms. The four selected programs, PHD, Predator, DSC, and NNSSP, based on different prediction approaches, were applied to each sequence of an align
ment of nAChR and 5-HT^sub 3^ receptor subunits, as well as a larger alignment with related subunit sequences from glycine and GABA receptors. A consensus prediction was computed for the nAChR subunits through a "winner takes all" method. By integrating the probabilities obtained with PHD, DSC, and ...
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Evaluation of the Information Content in Infrared Spectra for Protein Secondary Structure Determination
; ...experimental determination of protein secondary structure. Numerous approaches have been developed...the prediction of the different secondary structure contents. It appears that, at most...information that can be related to one secondary structure content. The ascending stepwise...
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Secondary Structure Analysis of Proteins Using IR Imaging
; ...analysis (PCA). A model that performs secondary structure estimation (SSE) on proteins based...desirable. Experimental For the secondary structure estimation of proteins, crystallization...However, the estimation of the secondary structure of proteins while preserving the...
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Monitoring Single-Stranded DNA Secondary Structure Formation by Determining the Topological State of DNA Catenanes
; ...new information about the ssDNA secondary structure. We construct catenanes out of two...linear oligodeoxynucleotides. The secondary structure formed between the two DNA circles...catenane. Thus, formation of the secondary structure is experimentally monitored by observing...
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Microsampling of Low-Concentration Aqueous Proteins Using a Novel Hydrophobic Sampling Device and the µMax(TM) Sample Compartment Infrared Microscope
; ...characterizing protein secondary structure. Infrared detection is...sensitive tool to identify the secondary structure of the protein and has...the anticipated different secondary structure. Based on the spectra...
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RNA folding process reveals new twist.(structure of RNA molecules)(Brief Article)
; ...and kinks, features known as RNA's secondary structure. The strand then bends into its...magnesium, you're just looking at the secondary structure, Tinoco explains. When you add magnesium...Researchers use computers to help predict secondary structure from the base sequence, then ...
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Force-induced denaturation of RNA
; ...determined free energy rules for RNA secondary structure and models the polymeric properties...faster than rearrangements in the secondary structure of the molecule, could show in principle...RNA and restricting ourselves to secondary structure (i.e., basepairing patterns only...
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Two-dimensional infrared correlation spectroscopy study of the aggregation of cytochrome c in the presence of dimyristoylphosphatidylglycerol
; ...to determine the various secondary structure components of cytochrome...provides information about their secondary structure. Either identification or quantification of each secondary structure component of a protein can...
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eSpectroscopic and structural properties of valine gramicidin A in monolayers at the air-water interface
; ...combined to obtain information on the secondary structure and the orientation of VGA and to...obtained by x-ray reflectivity, and the secondary structure of VGA was monitored using the frequency...molecular area, VGA shows a disordered secondary structure, whereas at smaller ...
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Effects of oligomerization and secondary structure on the surface behavior of pulmonary surfactant proteins SP-B and SP-C
; ...relationship among protein oligomerization, secondary structure at the interface, and the interfacial...extracts were consistent with a secondary structure dominated by [alpha]-helix. The...corresponded to an [alpha]-helical secondary structure and the spectra of the second SP...
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Dietary fats affect rat plasma lipoprotein secondary structure as assessed by fourier transform infrared spectroscopy
; ...Fats Affect Rat Plasma Lipoprotein Secondary Structure as Assessed by Fourier Transform...sunflower or olive oils on the secondary structure of plasma HDL and LDL from rats...dietary fat * lipoproteins * rats a secondary structure * Fourier transform infrared spectroscopy...
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