Chemical biology — the application of chemical tools to biological systems; distinct from biochemistry (which studies the chemistry of life as-is). Foundations: (1) Bioorthogonal chemistry (Bertozzi 2022 Nobel) — reactions with…
chemical-biology
Bioorthogonal chemistry: k₂ > 1 M⁻¹s⁻¹, zero biological cross-reactivity
Bioorthogonal chemistry (Bertozzi 2022 Nobel) — reactions that operate in living-cell / whole-organism conditions with two simultaneous…
Activity-based probe: warhead + linker + reporter; Langmuir occupancy
Activity-based protein profiling (Cravatt-Wright 2008) — a chemical-biology platform for measuring enzyme engagement in native cellular…
Click chemistry: CuAAC 1,3-dipolar cycloaddition → 1,2,3-triazole
Click chemistry (Sharpless-Meldal-Tornøe 2001 coinage; Sharpless-Meldal-Bertozzi 2022 Nobel) — a modular ligation philosophy defined by…
TCO+tetrazine k₂ vs SPAAC: 10⁶ / 10⁻¹ = 10⁷ (7 orders)
Sympy-exact witness of the bioorthogonal rate-ratio identity. Setup: k_TCO = 10⁶ M⁻¹ s⁻¹ (Blackman-Royzen-Fox 2008), k_SPAAC = 10⁻¹ M⁻¹…
ABP Langmuir: θ=L/(K_d+L); θ(K_d)=1/2, θ(∞)=1, θ(0)=0
Sympy-exact witness of the Langmuir hyperbolic occupancy law applied to activity-based probe binding. Setup: θ(L) = L/(K_d + L) on…
Click regio-count: thermal Huisgen 2 / CuAAC 1 ⇒ ratio 2
Sympy-exact witness of the CuAAC-vs-Huisgen regio-selectivity count. Setup: thermal Huisgen 1,3-dipolar cycloaddition of azide +…