ValidatorDB:UserManual: Difference between revisions
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Below you can find all the information you need in order to make efficient use of '''ValidatorDB'''. | Below you can find all the information you need in order to make efficient use of '''ValidatorDB'''. | ||
===[http://www.slideshare.net/lukypravda/validatordb-first-time-user-guide-37728902 | ===[http://www.slideshare.net/lukypravda/validatordb-first-time-user-guide-37728902 First time user guide to ValidatorDB]=== | ||
If you are a first time user, we recommend that you go through the basic presentation specifically prepared to help you get oriented. | If you are a first time user, we recommend that you go through the basic presentation specifically prepared to help you get oriented. | ||
---- | |||
===[[ValidatorDB:Introduction | Introduction]]=== | |||
---- | ---- | ||
===[[ValidatorDB:Terminology | Terminology]]=== | ===[[ValidatorDB:Terminology | Terminology]]=== | ||
* [[ValidatorDB:Terminology#Residue | Residue ]] | * [[ValidatorDB:Terminology#Residue | Residue ]] | ||
* [[ValidatorDB:Terminology#Non-standard_residue | Non-standard residue ]] | * [[ValidatorDB:Terminology#Non-standard_residue | Non-standard residue ]] | ||
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===[[ValidatorDB:Principles | Principles]]=== | ===[[ValidatorDB:Principles | Principles]]=== | ||
* [[ValidatorDB:Principles#Validation_procedure | Validation procedure ]] | * [[ValidatorDB:Principles#Validation_procedure | Validation procedure ]] | ||
* [[ValidatorDB:Principles#Validation_results | Validation results ]] | * [[ValidatorDB:Principles#Validation_results | Validation results ]] | ||
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---- | ---- | ||
===[[ValidatorDB | | ===[[ValidatorDB:Database_contents | Database contents]]=== | ||
* [[ValidatorDB:Database_contents#Incomplete_structures | Incomplete structures ]] | |||
* [[ValidatorDB:Database_contents#Complete_structures | Complete structures ]] | |||
===[[ValidatorDB: | ===[[ValidatorDB:Database_organization | Database organization]]=== | ||
Detailed validation reports for specific sections of the database | Detailed validation reports for specific sections of the database | ||
* [[ValidatorDB:Database_organization#Synopsis_page | Synopsis page ]] | |||
* [[ValidatorDB:Database_organization#Specifics_page | Specifics page ]] | |||
---- | ---- | ||
===[[ValidatorDB:CaseStudies | Case | ===[[ValidatorDB:CaseStudies | Case studies]]=== | ||
===[[ValidatorDB: | ---- | ||
===[[ValidatorDB:Technical_details | Technical details ]]=== | |||
Revision as of 01:50, 3 September 2014
ValidatorDB is a database of precomputed validation results for all ligands and non-standard residues in the Protein Data Bank (PDB). The molecules deemed relevant for validation are all ligands and non-standard residues with 7 or more heavy atoms. Standard nucleotides, standard amino acids and selenomethionine are not covered. The models from the wwPDB Chemical Component Dictionary (wwPDB CCD) are used as reference structures during validation. The database is updated on a weekly basis.
Below you can find all the information you need in order to make efficient use of ValidatorDB.
If you are a first time user, we recommend that you go through the basic presentation specifically prepared to help you get oriented.
Detailed validation reports for specific sections of the database