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SHR Neuro Cancer Cardio Lipid Metab Microb

Knödlstorfer, S; Toscano, G; Ptaszek, AL; Kontaxis, G; Napoli, F; Schneider, J; Maier, K; Kapitonova, A; Lichtenecker, RJ; Schanda, P; Konrat, R.
A Novel HMBC-CC-HMQC NMR Strategy for Methyl Assignment Using Triple-¹³C-Labeled α-Ketoisovalerate Integrated with UCBShift 2.0.
J Mol Biol. 2025; 169465 Doi: 10.1016/j.jmb.2025.169465
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Co-authors Med Uni Graz: Ptaszek Aleksandra
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Abstract:: In this study, we describe an integrated approach for methyl group assignment comprising precursor-based selective methyl group labeling, a novel pulse sequence for methyl to backbone coherence transfer and chemical shift predictions using UCBShift 2.0. The utility of this novel α-ketoacid isotopologue is shown by the adaptation of an HMBC-HMQC pulse sequence that simultaneously connects geminal methyl groups of leucine and valine residues to each other and to the protein backbone. By additional ¹³C,²H-labeling of residues other than valine and leucine residues of the protein, important chemical shift information about neighboring residues (following valine and leucine residues) can be achieved. Thus, different valine and leucine residues in a protein can be characterized as a specific chemical shift vector. Frequency matching with predicted chemical shifts via UCBShift 2.0 using experimental data taken from a subset of the BMRB database revealed a correct assignment performance of about 90%. With applications to proteins of 60.2 kDa and 134 kDa (4 x 33.5 kDa) in size, we demonstrate that the approach provides valuable information even for very large proteins.