Side-chain conformation angles of amino acids: effect of temperature factor cut-off.
The paper presents the analysis of the side-chain conformation angles of amino acids in 90% non-identical protein structures. The analysis has been carried out using 113,699 residues, which is higher compared to the previous studies. In the present study, one more quality check, namely, temperature factor cut-off, has been introduced in addition to resolution and R-factor cut-offs. Due to this, the present calculation reveals the approximate values for the minimum and the maximum of the three-rotameric states of chi1. In addition, the conformation angles chi2 and chi3 have been addressed with the improved data set. The results reported here could be of use in protein modeling.
Ramya Bhargavi
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Bioinformatics Centre, Indian Institute of Science, Bangalore 560012, India.
Sheik
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Velmurugan
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Sekar
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D000596:Amino Acids / Q000737:chemistry*; D018360:Crystallography, X-Ray; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D013696:Temperature; D013816:Thermodynamics
D000596:Amino Acids; D011506:Proteins