Download Computational Strategies Towards Improved Protein Function by MVK Karthik, Pratyoosh Shukla PDF

By MVK Karthik, Pratyoosh Shukla

This short experiences at the interaction of an amino-acid mutation in the direction of substrate that may result in improved results on mutant. those results must be given attention within the engineering strategies of protein balance and additional exploration of such studying are required to supply novel indication for choice of an enzymes. There are only a few experiences exhibiting such strong, strength effective version in the direction of stronger protein functionality prediction screening in-silico constitution dependent mutagenesis of xylanases from Thermomyces lanuginosus​

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Extra resources for Computational Strategies Towards Improved Protein Function Prophecy of Xylanases from Thermomyces lanuginosus

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Karthik and P. 4 Stereo-Chemical Quality Check and Analysis of Non-Bonded Interactions PROCHECK was used to evaluate the stereo chemical quality of all 19 mutant generated through Swiss PDB-Viewer after permutation analysis. Further ERRAT was used to analyze the statistics of non-bonded interactions between different atom types. Further plots were generated detailing the value of the error function versus position of a 9-residue sliding window and were designed from highly refined structures. 1 docking program was used for protein molecules docking calculations (Ritchie and Venkatraman 2010).

16 Ortiz AR, Strauss CE, Olmea O (2002) Mammoth (matching molecular models obtained from theory): an automated method for model comparison. Prot Sci 11:2606–2621 Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 Edgar, Robert C (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797 Capra J, Singh M (2007) Predicting functionally important residues from sequence conservation.

Furthermore, during residue conservation analysis through ConSurf method Tyr77 was observed as highly conserved among others. Molecular docking of endo-1, 4-beta xylanases (1YNA) with substrates viz. xylobiose and beta-D-xylopyranose established Tyr77 residue as conserved in both the binding sites and InterProScan analysis further verified Tyr77 in family 11 glycoside hydrolase motifs with a significantly good score of 1,604. 78) indicating that the mutant binding residue present in interactions between the substrate and residues.

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