Changes

Jump to: navigation, search

ValidatorDB:Database organization

138 bytes added, 10:03, 28 December 2014
Synopsis page
The ''synopsis page'' consists of 6 tabs, two providing support, and four enabling access to the database itself. Since this is your first contact with the database, the support tabs '''Quick Help''' and '''Samples''' help you get started, with basic information and examples of database snippets. Various interactive guides are accessible by a green button at the top right corner of some tabs. Examples of more complex analyses are available as ''[[ValidatorDB:CaseStudies | case studies]]''.
{| class="wikitable" border="1" style="margin: 1em auto 1em auto;" width="650px"
|-
|<!--Col1--><center>[[File:VDB_intro.png| 650px]]
|<!--Col2-->[[File:VDB_samples.png| 650px]]
|-
|<!--Col1-->The ''synopsis page'' consists of 6 tabs, two providing support, and four enabling access to the database itself. <br />The support tab '''Quick Help''' helps you get started, with basic information about how to get oriented in the<br /> web page. Various interactive guides are accessible by a green button at the top right corner of some tabs.<br /> Tool tips are available for most of the graphical elements.
|<!--Col2--> The '''Samples''' tab offers basic examples of database snippets, along with a brief interpretation of results. Two categories of sample validation reports (Molecules, PDB Entry) illustrate interesting cases of molecules with a high or low number of errors. Additionally, the Step-by-Step category contains video tutorials and slides explaining how to obtain such results. Examples of more complex analyses are available as ''[[ValidatorDB:CaseStudies | case studies]]''.
|}
==Search==
[[File:ValidatorDB-Search By Entry and Annotation.png|thumb|right|500px650px|The '''Search tab''' allows to retrieve validation reports for specific molecules. You may use several search criteria, namely by PDB entry (4-letter code), by molecule identifier (PDB ID: residue ID chain), molecule annotation (3-letter code), or a combination of the PDB entry and molecule annotation (shown here). In each case you will be provided with an input field, where you can enter a list of values for the relevant criterion. Examples and tool tips are provided for easy reference with respect to the expected syntax.]]
'''ValidatorDB''' contains validation results for the entire Protein Data Bank. You are probably interested only in a subset of these (e.g., the validation results for a specific inhibitor which appears in the PDB entry you plan to use further in your simulations). The ''synopsis page'' allows to access specific validation reports via the '''Search tab'''.
The drop down menu at the top of the page helps filter the warnings for molecules with a specific annotation (3-letter code).
<br style="clear:both" />
 
'''Continue by examining the [[ValidatorDB:CaseStudies | case studies]], or return to the [[ValidatorDB:UserManual | Table of contents]].'''

Navigation menu