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| =Structural Pattern Identification and Validation=
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| {{col-begin}}
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| {{col-4}}
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| === [[PatternQuery:UserManual | PatternQuery]] ===
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| :''Identification of molecular (sub)structures in the entire Protein Data Bank''
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| {{col-4}}
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| === [[MotiveValidator:UserManual | MotiveValidator]] ===
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| : ''Validation of annotation of ligands and non-standard residues in the protein structures''
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| {{col-4}}
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| === [[ValidatorDB:UserManual | Validator<sup>DB</sup>]] ===
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| :''Validation of annotation of ligands and non-standard residues for the entire Protein Data Bank''
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| {{col-4}}
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| === [[SecStrAnnotator:UserManual | SecStrAnnotator]] ===
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| :''Annotation of the secondary structure elements in the protein structures''
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| {{col-end}}
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| =EEM Charges Computation=
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| {{col-begin}}
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| {{col-2}}
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| === [[ChargeCalculator:UserManual | AtomicChargeCalculator]] ===
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| :''Calculation of EEM charges for the small molecules as well as entire protein complexes''
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| {{col-2}}
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| === [[NEEMP:UserManual | NEEMP]] ===
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| :''Toolkit for parametrization, calculaton and validation of EEM charges''
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| {{col-end}}
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| =Molecular Visualization=
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| === [[LiteMol:UserManual | LiteMol]] ===
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| :''Comprehensive visualization of (extremely large) protein structures''
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| =Bioinformatics tools=
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| === [[CrocoBLAST:UserManual | CrocoBLAST]] ===
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| :''Optimized parallel implementation of local sequence alignment algorithms''
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| Current version: 1.16.11.04 (see the [[CrocoBLAST:ReleaseNotes | Release notes]])
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