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10.1186/1471-2105-15-197 http://scihub22266oqcxt.onion/10.1186/1471-2105-15-197 C4071799!4071799!24938294     free     free     free Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       BMC+Bioinformatics 2014 ; 15 (ä): 197 Nephropedia Template TP {{tp|p=24938294|t=2014. KVFinder: steered identification of protein cavities as a PyMOL plugin |pdf=|usr=}}{{24938294}} gab.com Text KVFinder: steered identification of protein cavities as a PyMOL plugin JO: BMC Bioinformatics http://www.kidney.de/pget.php?&tw=1&pmid=24938294 #FOAvip Background: The characterization of protein binding sites is a major challenge in computational biology. Proteins interact with a wide variety of molecules and understanding of such complex interactions is essential to gain deeper knowledge of protein function. Shape complementarity is known to be important in determining protein-ligand interactions. Furthermore, these protein structural features have been shown to be useful in assisting medicinal chemists during lead discovery and optimization. Results: We developed KVFinder, a highly versatile and easy-to-use tool for cavity prospection and spatial characterization. KVFinder is a geometry-based method that has an innovative customization of the search space. This feature provides the possibility of cavity segmentation, which alongside with the large set of customizable parameters, allows detailed cavity analyses. Although the main focus of KVFinder is the steered prospection of cavities, we tested it against a benchmark dataset of 198 known drug targets in order to validate our software and compare it with some of the largely accepted methods. Using the one click mode, we performed better than most of the other methods, staying behind only of hybrid prospection methods. When using just one of KVFinder?s customizable features, we were able to outperform all other compared methods. KVFinder is also user friendly, as it is available as a PyMOL plugin, or command-line version. Conclusion: KVFinder presents novel usability features, granting full customizable and highly detailed cavity prospection on proteins, alongside with a friendly graphical interface. KVFinder is freely available on http://lnbio.cnpem.br/bioinformatics/main/software/. Twit Text FOAVip KVFinder: steered identification of protein cavities as a PyMOL plugin ????BMC Bioinformatics http://www.kidney.de/pget.php?&tw=1&pmid=24938294 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=24938294 #FOAvip English Wikipedia <ref>{{Cite pmid|24938294}}</ref> KVFinder: steered identification of protein cavities as a PyMOL plugin #MMPMID24938294 Oliveira SH; Ferraz FA; Honorato RV; Xavier-Neto J; Sobreira TJ; de Oliveira PS BMC Bioinformatics 2014[]; 15 (ä): 197 PMID24938294show ga Background: The characterization of protein binding sites is a major challenge in computational biology. Proteins interact with a wide variety of molecules and understanding of such complex interactions is essential to gain deeper knowledge of protein function. Shape complementarity is known to be important in determining protein-ligand interactions. Furthermore, these protein structural features have been shown to be useful in assisting medicinal chemists during lead discovery and optimization. Results: We developed KVFinder, a highly versatile and easy-to-use tool for cavity prospection and spatial characterization. KVFinder is a geometry-based method that has an innovative customization of the search space. This feature provides the possibility of cavity segmentation, which alongside with the large set of customizable parameters, allows detailed cavity analyses. Although the main focus of KVFinder is the steered prospection of cavities, we tested it against a benchmark dataset of 198 known drug targets in order to validate our software and compare it with some of the largely accepted methods. Using the one click mode, we performed better than most of the other methods, staying behind only of hybrid prospection methods. When using just one of KVFinder?s customizable features, we were able to outperform all other compared methods. KVFinder is also user friendly, as it is available as a PyMOL plugin, or command-line version. Conclusion: KVFinder presents novel usability features, granting full customizable and highly detailed cavity prospection on proteins, alongside with a friendly graphical interface. KVFinder is freely available on http://lnbio.cnpem.br/bioinformatics/main/software/. äKVFinder: steered identification of protein cavities as a PyMOL plugin(epmc).pdf DeepDyve Pubget Overpricing