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Purchasable compounds collection

The Purchasable compounds collection is currently the main part of the Mcule database. It is managed by Mcule using our rigorous compound registration system - MAC and automatic product data update mechanism. It contains more than 35 million unique purchasable compounds prepared for virtual screening.

The content of the purchasable compounds collection is updated daily with the products that are commercially available currently from’s compounds suppliers. Identifiers of the compounds are assigned considering tautomerism and protonation states, different form of the products are mapped to a single compound in the collection.

Main features: chemical correctness, tautomer detection, available products for each compound, daily stock amount update

Standardization and chemical correctness

During compound registration different forms of chemical issues are addressed. Compounds with incorrect structure or ambiguous representation will need to go through a manual correction process before they are added to this collection. Registered compounds are stored in standardized form with all their components identified and classified as a main component or as a counter ion or a solvent.

Before registering product catalogs, the stereochemical representation of the supplier is determined and compounds are registered accordingly. Unreliable stereo data are removed to prevent misunderstandings and further issues. The stereochemical drawing convention applied by is capable to represent fully described stereo configurations and fully or partially known / uncertain ones as well.

Automatic product update mechanism

Compound suppliers have their own compound database and online interface. At not only are the structures collected and standardized but product data is also synchronized. When it is possible, we access and collect the in-stock available amount of the products and display it to you.

Currently up-to-date amount data is provided for 6.6M+ products represented in the purchasable compound collection.’s web page that provides more detailed information about the current synchronization state of current suppliers is under development. In the meantime, we list here those compound suppliers provide up-to-date availabiliy information.

Suppliers with online shop

Currently, for more than 4.3M products the available amount is synchronized with suppliers’ online shops. Catalogs synchronized via online shops are:

Supplier Catalog
Specs Screening Compounds
ChemDiv Discovery Chemistry Library (synthetic)
Enamine HTS Collection
Enamine Advanced Collection
ChemBridge EXPRESS-Pick collection
ChemBridge IONCore Library
ChemBridge NHRCore Library
ChemBridge KINACore Library
ChemBridge GPCR Library
ChemBridge NOVACore Library
Key OrganicsScreening Compound Library

Product data for these catalogs is synchronized on the fly when you are browsing’s compound index pages: the suppliers’ online interface is queried directly for new information. We also update the full catalog of each supplier, except for Enamine, nightly.

Suppliers without online shop

Suppliers that don’t have online shops but also provide frequent updates or have online interfaces to access available amount instantly:

Supplier Catalog
Life Chemicals Screening Compound
Life Chemicals Building Blocks
Vitas-M Laboratory Historical collection
Vitas-M Laboratory Fragments library
Chemical Block Building Blocks
Chemical Block Screening Library
InterBioScreen Screening Compounds

2.3M+ products fall into this category, with updated amounts, that are either accessed on the fly (Chemical Block) or nightly (Vitas-M Laboratories, InterBioScreen).

Where can you access product data

You can access updated product data on’s compound index pages. In compound index pages you can find all the information collected about a given chemical structure. Product data can be found under the ’Product availability’ tab.

Access the purchasable compound collection

Purchasable compound collection can be downloaded from here and can be screened on Mcule’s virtual screening interface. Alternatively, you can browse the collection: it is listed among the public collections on the collection tab.

If you would like to access all the product information collected from the compound suppliers in batch mode, or download the purchasable compounds with these data attached, you can choose one of our subscription plans. Subscription also enables you to screen the purchasable compound collection by product properties (such as purity, in stock amount, supplier catalog…), and export screening results with product access information included.

purchasable.txt · Last modified: 2016/03/18 11:12 by flack