Protein Vibrational Modes — Anisotropic Network Model

ANM: Cα atoms connected by harmonic springs within cutoff r_c. Hessian diagonalization reveals slow (functional) modes. Mode shapes encode collective domain motions.

ANM Parameters

Protein model: Cutoff r_c: 7.5 Å Mode index (non-trivial): 1 Amplitude: 1.5

Mode freq: —
N_contacts: —

Lowest modes → large-scale
domain motions (functional)
B-factor ∝ Σ (1/λ_k)|u_k|²