Session: 802. Chemical Biology and Experimental Therapeutics: Poster I
Hematology Disease Topics & Pathways:
Fundamental Science, Research, Assays, Plasma Cell Disorders, Diseases, Lymphoid Malignancies, Technology and Procedures, Molecular testing
Study Design and Methods: Evaluation of the nature of binding of KTX-1001 to its target was conducted using surface plasmon resonance (SPR) to quantify on-rate, off-rate, and equilibrium dissociation constant utilizing the NSD2 SET domain as the immobilized target. In this assay format, no saturable or specific binding could be observed, despite the potent activity in the enzymatic assay using either full length NSD2 or the SET domain sequence, and radiolabeled SAM. To interrogate the discordance between potent enzymatic activity and the lack of detectable binding in the aforementioned assay, a series of experiments were designed in which KTX-1001 was tethered to the surface of the chip, with target (NSD2 SET domain) applied in the solution phase, with and without nucleosomes and with and without cofactor, in a “reverse” type SPR format.
Results: The mean binding affinity (KD) was determined for the tethered KTX-1001 molecule to SET, SET/nucleosomes, SET/SAM, and a combination of SET/SAM/nucleosomes. A mean KD of ~70 nM for SET, versus an IC50 of 2.31 nM for untethered KTX-1001 in the biochemical assay, is indicative of the tethered KTX-1001 successfully binding to the SET domain in the “reverse” SPR format. Repetition of the experiment in the presence of nucleosomes resulted in a KD of ~15 nM, a nearly 5-fold tighter binding to SET. SET preincubated with SAM bound tethered KTX-1001 with a KD of ~18 nM, demonstrative of non-interference of SAM with binding. Measurement of SET, SAM, and nucleosomes provided a KD of ~6 nM for the tethered KTX-1001 for an 11-fold tighter binding compared to SET alone, approaching the IC50 of 2.3 nM measured in the biochemical assay.
Conclusion: The experiments demonstrated that the tethered molecule bound to the NSD2 SET domain in a specific and saturable manner, with an affinity comparable to the IC50 determined in the enzymatic assay, and identified KTX-1001 as a unique binder of NSD2 in the presence of cofactor and substrate. These data also identify that SPR in “reverse” mode is a useful tool to characterize small molecule binding events not amenable to standard SPR format. A Phase 1 study evaluating KTX-1001 in relapsed/refractory multiple myeloma is ongoing (NCT05651932).
Disclosures: Lewis: K36 Therapeutics: Current Employment, Current equity holder in private company, Current holder of stock options in a privately-held company. Beebe: K36 Therapeutics: Consultancy. Connolly: K36 Therapeutics, Pfizer: Current Employment, Current equity holder in private company, Current equity holder in publicly-traded company, Current holder of stock options in a privately-held company.
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