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An algorithm of assigning the force parameters to atoms of organic molecules and proteins in the framework of the MMFF94 force field" . Grigoriev F.V., Romanov A.N., Kondakova O.A., Luschekina S.V., Sulimov V.B. The FARS (Fire Algorithm for Rings Search) algorithm of assigning the force parameters for atoms of organic molecules and proteins in the framework of the MMFF94 force field is considered. ...

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... This form lets you to produce a list of hydrophobic clusters in a PDB file specified by user. Enter a 4-letter PDB code, e.g.: 1apl : . Search clusters: . ... between chains . Contacts between chains . Set #1 . ... Enter your e-mail here (optional): . ... List of atoms Strict Wide . Chains filter (1-20:A) . Show clusters not smaller than atoms . User data file in PDB format . ...

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