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Model Evaluation: Difference between revisions
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more details for ligplot according to ccp4bb posts
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(more details for ligplot according to ccp4bb posts) |
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* [http://www.sdsc.edu/CCMS/FP/index.html FADE and PADRE ]- Shape and Complementarity Server | * [http://www.sdsc.edu/CCMS/FP/index.html FADE and PADRE ]- Shape and Complementarity Server | ||
* [http://wiki.c2b2.columbia.edu/honiglab_public/index.php/Software:GRASP GRASP] - Calculate electrostatic potential | * [http://wiki.c2b2.columbia.edu/honiglab_public/index.php/Software:GRASP GRASP] - Calculate electrostatic potential | ||
* [http://www.biochem.ucl.ac.uk/bsm/ligplot/ligplot.html LIGPLOT] - Interactions around a ligand of piece of structure | * [http://www.biochem.ucl.ac.uk/bsm/ligplot/ligplot.html LIGPLOT] - Interactions around a ligand of piece of structure. There is also LigPlot+ at http://www.ebi.ac.uk/thornton-srv/software/LigPlus/; the [http://www.ebi.ac.uk/pdbsum/ PDBsum] server internally runs ligplot and returns pdf files; non-released PDB files can be handled using the "generate" option in the left panel | ||
* [http://www.bioinf.manchester.ac.uk/naccess/ NACCESS] - Surface area calculaitons, per residue, or atom | * [http://www.bioinf.manchester.ac.uk/naccess/ NACCESS] - Surface area calculaitons, per residue, or atom | ||
* [http://www.ccp4.ac.uk/dist/html/ncont.html NCONT ] - (ccp4) analyses contacts between subsets of atoms in a PDB file | * [http://www.ccp4.ac.uk/dist/html/ncont.html NCONT ] - (ccp4) analyses contacts between subsets of atoms in a PDB file | ||