Ribosome dynamics under experimentally reported initiation and elongation rates.
A) Simulated mean number of codons between ribosomes for the β-actin gene as function of initiation and elongation constants. In the plot, previous literature initiation and elongation values are highlighted by the squares [6–10], and values estimated in this study are denoted by asterisks. B) Simulated number of collisions per ribosome as a function of initiation and elongation constants. C) Top panel, kymograph showing the ribosomal dynamics for SunTag-24X-Kif18b using experimentally determined parameters ki = 1/100 sec−1 and = 3.1 aa/sec [10]. Center panel, kymograph showing the ribosomal dynamics for FLAG-10X-KDM5B using experimentally determined parameters ki = 1/30 sec−1 and = 10 aa/sec [6]. Bottom panel, kymograph showing the ribosomal dynamics for SunTag-56X-Ki67 using experimentally determined parameters ki = 1/13 sec−1 and = 13.2 aa/sec [9]. White lines in kymographs represent single ribosome positions, and green spots represent ribosome collisions.