How to Generate a Solid Form Landscape without a Crystal Structure with CSD Landscape Generator
July 19, 2023
A solid form landscape shows you the possible polymorphs and stoichiometries your solid form system could take. This allows you to identify risks and find opportunities to impact stability and properties. So how can you foresee solid forms before you have a crystal structure? Here we see how the CSD Landscape Generator in Mercury makes it possible.
Previously only available through CSD Theory, CSD Landscape Generator is now available as a stand-alone product. This blog explains how the tool can be used to generate a solid form landscape of any single or multi-component system.
What Does CSD Landscape Generator Tell Me?
What a landscape provides is lots of possible packings of molecules based on other observed crystal structures. The landscape will contain plausible crystal structures, which can bear relation to experimentally observed structure; in particular if there are close analogues of experimental structures in the CSD, then you may well observe structures quite similar to experimental structures in the landscape. The landscape as a whole then can inspire ideas about interactions you may expect to see in as yet unknown structure.
What is a Solid Form Landscape, and How Can it Help my R&D?
When we talk about the solid form landscape, we mean the possible forms a single- or multi-component system could take. Different polymorphs, different stoichiometries, different packing… each form will have different stability and different properties.
In pharmaceuticals, this could mean a less active or even a harmful form. In functional materials it might mean a less accessible, less effective, or non-functional form. In all solid-state materials, the properties can directly impact handling and processing.
One famous example is Ritonavir, which was pulled from production when an alternative polymorph was found—at great financial and human patient cost. Estimates predict that 15–45% of small molecule drugs on the market could show similar issues.
Generating a solid form landscape therefore means that you can spot risks to mitigate, and opportunities to leverage, before they impact your product.
How Can I Generate a Solid Form Landscape?
Current methods rely on crystal structure prediction, or CSP. These generate large landscapes and predict the energy of each system. However, they are computationally expensive and require a lot of expertise. CSP as a field continues to grow, but challenges remain. (See CCDC Senior Research Fellow, Jason Cole’s blog: What is CSP? And why is it so difficult?)
CSD Landscape Generator offers a rapid, simple way to generate a solid form landscape without prior expertise or experience. Using fingerprinting and matching molecular shapes (described by Cole et al. here), the system compares your entered molecule to the experimentally confirmed structures in the Cambridge Structural Database and generates a solid form landscape. This is all done in a few clicks in the well-known program Mercury.
You can enter a 1D SMILES or a 2D sketch and get this landscape of possible crystal structures in minutes—all based on empirical data.
Can I Generate a Solid Form Landscape without a Crystal Structure?
Yes. You can enter a 1D SMILES string or a 2D sketch of a molecule that has not even been synthesized. Using the empirical data in the Cambridge Structural Database (CSD) or your own proprietary database, the system generates a 3D molecular structure and then putative 3D crystal structures. This is all done in a few clicks in the program Mercury or is also accessible in the CSD Python API.
Does CSD Landscape Generator Tell Me the Energy of a System?
No. These are just possible structures to guide and inform further experimental or CSP work, and the energy is not calculated accurately. You will get a simple score that correlates with sublimation enthalpy from known structures in the CSD. An example of the method in use is described in the publication relating to the sixth CSP Blind Test here.
How Can I Access CSD Landscape Generator?
CSD Landscape Generator is now available as a stand-alone add-on outside of CSD Theory.
Learn more about CSD Landscape Generator here.
CSD Landscape Generator. (1)
Solid Form Informatics (7)