Practical Fragments

This blog is meant to allow Fragment-based Drug Design Practitioners to get together and discuss NON-CONFIDENTIAL issues regarding fragments.

27 July 2026

Ligand affinities for isolated proteins vs in cells and cell lysates

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Earlier this year we highlighted a study that compared the affinities of kinase inhibitors for isolated proteins vs those same proteins in ...
20 July 2026

Differential scanning fluorimetry (DSF) for covalent ligands

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Differential scanning fluorimetry (DSF), also known as a thermal shift assay, is one of the most common techniques for fragment screening ac...
13 July 2026

Fluorine NMR meets make-on-demand libraries

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Last month Practical Fragments wrote about make-on-demand libraries, such as those offered by Enamine. We’ve also written about fluorine-...
06 July 2026

Fragment events in 2026 and 2027

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We're half-way through 2026, but there are still some good events ahead. And 2027 is already starting to take shape. September 14-16: Fr...
30 June 2026

Covalent fragment linking on the SARS-CoV-2 Main Protease

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Fragment linking is a compelling approach to advancing fragments, but, as our poll from several years ago showed, it often works better in ...
14 June 2026

Vast fields of biologically active chemical space

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Exactly 17 years ago, I  highlighted a paper from Brian Shoichet’s lab in which he hypothesized that only tiny regions of chemical space ar...
08 June 2026

An unexpected lysine-reactive covalent fragment against a Pleckstrin Homology domain

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Last week we highlighted a study in which an attempt to optimize a covalent fragment led to a non-covalent fragment that bound in a differe...
01 June 2026

From covalent to noncovalent 14-3-3 modulator, unintentionally

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The seven members of the 14-3-3 family act as “hub proteins” that bind to other proteins, bringing them together or affecting their subcellu...
25 May 2026

Fragments in the clinic: VVD-214

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Just over two years ago we highlighted a new clinical candidate targeting WRN, a covalent inhibitor then called VVD-133214. An open-access ...
18 May 2026

From noncovalent fragments to covalent WRN inhibitors

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Last week we described the discovery and early optimization of noncovalent inhibitors against the the DNA helicase WRN, an interesting onco...
11 May 2026

Noncovalent fragments vs WRN

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Werner syndrome helicase, or WRN, is an interesting target both for its biological mechanism and its flexible structure. Two years ago we hi...
04 May 2026

(Not) getting misled by crystal structures part 6: low ligand occupancies

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It’s been a while since our last “getting misled by crystal structures” post . That one described unrecognized conformational heterogeneity ...
27 April 2026

Fragments vs DsbA: towards a chemical probe

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Despite its ubiquitous use as a model organism, Escherichia coli causes nearly a million deaths each year worldwide. Antibiotics provoke ra...
20 April 2026

Twenty-First Annual Fragment-Based Drug Discovery Meeting

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Last week some 875 people attended the CHI Drug Discovery Chemistry ( DDC ) meeting in San Diego. I can’t do justice to the 40 or so present...
2 comments:
13 April 2026

Fragments vs the E3 ligase KLHL12

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Last week we highlighted work out of Steve Fesik’s lab at Vanderbilt University about PLPro. This week we’ll highlight another paper just p...
06 April 2026

From noncovalent fragment to (non)covalent leads against PLPro

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The most successful drug against COVID-19, nirmatrelvir, targets the main protease of SARS-CoV-2. As we discussed just last year, this prot...
01 April 2026

NICELE: everyone gets an A+!

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Since the invention of ligand efficiency ( LE ) more than two decades ago, scholars have been debating its strengths and weaknesses. And alt...
3 comments:
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