Notes on the 2001 JMB paper introducing SOCKET, a computational tool that identifies coiled-coil motifs based on structural features rather than sequence patterns. Highlights the diversity of coiled-coil structures, the central role of knobs-into-holes packing, and applications in structural analysis and design.
Notes on the 2001 JMB paper introducing SOCKET, a computational tool that identifies coiled-coil motifs based on structural features rather than sequence patterns. Highlights the diversity of coiled-coil structures, the central role of knobs-into-holes packing, and applications in structural analysis and design.
Notes on the 1996 JMB paper introducing the Helical Lattice Superposition Model for analyzing helix-helix packing geometry in proteins. Explores mathematical formulations of optimal packing angles, comparing ‘knobs into holes’ and ‘ridges into grooves’ models, and provides insights into amino acid preferences and packing flexibility.
Notes on the 1996 JMB paper introducing the Helical Lattice Superposition Model for analyzing helix-helix packing geometry in proteins. Explores mathematical formulations of optimal packing angles, comparing ‘knobs into holes’ and ‘ridges into grooves’ models, and provides insights into amino acid preferences and packing flexibility.
Notes on a 2002 JBC review dissecting CaMKII’s structure-function relationship, covering autoinhibition, isoform diversity, holoenzyme assembly, autophosphorylation, subunit exchange, and Ca2+/CaM frequency decoding — a foundational reference for understanding this multifunctional kinase as a calcium signal integrator.
Notes on a 2002 JBC review dissecting CaMKII’s structure-function relationship, covering autoinhibition, isoform diversity, holoenzyme assembly, autophosphorylation, subunit exchange, and Ca2+/CaM frequency decoding — a foundational reference for understanding this multifunctional kinase as a calcium signal integrator.
Notes on a 2015 Neuron paper revealing how CaMKII’s dual role as kinase and structural element regulates actin remodeling during synaptic plasticity, showing that autophosphorylation-mediated dissociation from F-actin provides a time window permissive for structural long-term potentiation (sLTP).
Notes on a 2015 Neuron paper revealing how CaMKII’s dual role as kinase and structural element regulates actin remodeling during synaptic plasticity, showing that autophosphorylation-mediated dissociation from F-actin provides a time window permissive for structural long-term potentiation (sLTP).
Notes on the mechanism by which PDK1 is activated via PIP3-mediated dimerization and trans-autophosphorylation, highlighting the role of PH domain autoinhibition, linker-mediated dimerization, and switch-like activation mechanisms.
Notes on the mechanism by which PDK1 is activated via PIP3-mediated dimerization and trans-autophosphorylation, highlighting the role of PH domain autoinhibition, linker-mediated dimerization, and switch-like activation mechanisms.
Notes on a 1995 Nature paper revealing the structural mechanism of CDK2 activation by cyclinA, focusing on key conformational changes that relieve autoinhibition and organize the catalytic site.
Notes on a 1995 Nature paper revealing the structural mechanism of CDK2 activation by cyclinA, focusing on key conformational changes that relieve autoinhibition and organize the catalytic site.
Notes on a 2005 Cell paper revealing the crystal structure of autoinhibited CaMKII kinase domain and small-angle X-ray scattering (SAXS) analysis of the full holoenzyme, uncovering mechanisms for tight autoinhibition and explaining frequency-dependent activation.
Notes on a 2005 Cell paper revealing the crystal structure of autoinhibited CaMKII kinase domain and small-angle X-ray scattering (SAXS) analysis of the full holoenzyme, uncovering mechanisms for tight autoinhibition and explaining frequency-dependent activation.
Notes on a 2011 Cell paper that reveals the full-length crystal structure of human CaMKII in its autoinhibited state and introduces a tunable mechanism for calcium signal decoding based on linker length-dependent conformational dynamics.
