To make the retrieval of chemical structures and reactions consistent and to facilitate the necessary duplicate checks for structures and reactions a company needs enterprise wide drawing rules for chemical structures. For example, chemists may argue which form of the Sulfoxide depiction may be preferred
The representation of stereochemistry is an area where the opinions of chemists may widely divergence. The bond relationships in chemical complexes have not been handled consistently by most of the database systems for a long time so that a number of individual workarounds have been introduced. Abbreviations for structure elements like COOH for the carboxylic acid may be used by some chemists while other may decline them because it must be checked what you really find behind the abbreviation. Finally not all substances can be represented by a structural depictions at all. Especially large molecules like antibodies, peptide chains, DNA, RNA or starch may be too large to be handled by most of the structure database systems that have been mainly developed to handle the pharmaceutical market with its small chemical structures. But most of the data handling is set up in a way that even these “non-structures” need a unique reference in the structure database to keep the entire system consistent.
While each individual chemist has a vision how to solve this type of issues you need a common set of drawing rules on company level to enforce a common understanding by all the chemists. This is the task of Chemical Drawing Rules
The criteria for the development of these rules must be that they can be implemented in the structure database management system and that you have ways to control the individual drawings automatically to make sure that all chemical structures of the database are drawn consistently.
For examples and methods how you may invoke consistent drawing see the article Automated Structure Modifications and Normalizations