Transfer-NMR and Docking Studies Identify the Binding of the Peptide Derived from Activating Transcription Factor 4 to Protein Ubiquitin Ligase β-TrCP. Competition STD-NMR with β-Catenin
doi: 10.1021/bi7014212
pmid: 18052253
Transfer-NMR and Docking Studies Identify the Binding of the Peptide Derived from Activating Transcription Factor 4 to Protein Ubiquitin Ligase β-TrCP. Competition STD-NMR with β-Catenin
ATF4 plays a crucial role in the cellular response to stress. The E3 ubiquitin ligase, SCF beta-TrCP protein responsible for ATF4 degradation by the proteasome, binds to ATF4 through a DpSGXXXpS phosphorylation motif, which is similar but not identical to the DpSGXXpS motif found in most other substrates of beta-TrCP. NMR studies were performed on the free and bound forms of a peptide derived from this ATF4 motif that enabled the elucidation of the conformation of the ligand complexed to the beta-TrCP protein and its binding mode. Saturation transfer difference (STD) NMR allowed the study of competition for binding to beta-TrCP, between the phosphorylation motifs of ATF4 and beta-catenin, to characterize the ATF4 binding epitope. Docking protocols were performed using the crystal structure of the beta-catenin-beta-TrCP complex as a template and NMR results of the ATF4-beta-TrCP complex. In agreement with the STD results, in order to bind to beta-TrCP, the ATF4 DpSGIXXpSXE motif required the association of two negatively charged areas, in addition to the hydrophobic interaction in the beta-TrCP central channel. Docking studies showed that the ATF4 DpSGIXXpSXE motif fits the binding pocket of beta-TrCP through an S-turning conformation. The distance between the two phosphate groups is 17.8 A, which matched the corresponding distance 17.1 A for the other extended DpSGXXpS motif in the beta-TrCP receptor model. This study identifies the residues of the beta-TrCP receptor involved in ligand recognition. Using a new concept of STD competition experiment, we show that ATF4 competes and inhibits binding of beta-catenin to beta-TrCP.
Models, Molecular, Magnetic Resonance Spectroscopy, Sequence Homology, Amino Acid, Recombinant Fusion Proteins, Amino Acid Motifs, Molecular Sequence Data, beta-Transducin Repeat-Containing Proteins, Activating Transcription Factor 4, Protein Structure, Secondary, Protein Structure, Tertiary, [SDV] Life Sciences [q-bio], [CHIM] Chemical Sciences, Humans, Amino Acid Sequence, Phosphorylation, Peptides, Nuclear Magnetic Resonance, Biomolecular, beta Catenin, Protein Binding
Models, Molecular, Magnetic Resonance Spectroscopy, Sequence Homology, Amino Acid, Recombinant Fusion Proteins, Amino Acid Motifs, Molecular Sequence Data, beta-Transducin Repeat-Containing Proteins, Activating Transcription Factor 4, Protein Structure, Secondary, Protein Structure, Tertiary, [SDV] Life Sciences [q-bio], [CHIM] Chemical Sciences, Humans, Amino Acid Sequence, Phosphorylation, Peptides, Nuclear Magnetic Resonance, Biomolecular, beta Catenin, Protein Binding
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