TABLE 1.
Name of simulation | Length of simulation (ns) | Loop E from: | Presence of ions |
---|---|---|---|
EbacMg | 9.7 | E. coli | 5 Mg2+ and 10 Na+ |
EbacNa1 | 8.8 | E. coli | 20 Na+ |
EbacNa2 | 8.8 | E. coli | 20 Na+ |
EchlMg | 10 | Spinach chloroplast | 5 Mg2+ and 10 Na+ |
EchlNa | 7.4 | Spinach chloroplast | 20 Na+ |
Nosalt-Ebac | 10 | E. coli | Neutralising plasma |
Nosalt-Echl | 5 | Spinach chloroplast | Neutralising plasma |
Ebac-refold with Mg2+* | 4 | E. coli | 5 Mg2+ and 10 Na+ |
Ebac-refold with Na+* | 6 | E. coli | 20 Na+ |
Ebac-relax with Na+† | 3.5 | E. coli | 20 Na+ |
400K_Ebac-ntp‡ | 2.5 | E. coli | 5 Mg2+ and 10 Na+ |
400K_Echl-ntp‡ | 3 | Spinach chloroplast | 5 Mg2+ and 10 Na+ |
400K_Echl-ntv‡ | 5 | Spinach chloroplast | 5 Mg2+ and 10 Na+ |
This simulation has been started with partly unfolded geometry obtained at 1 ns of the no-salt simulation.
This simulation has been started with narrow deep groove geometry obtained in the course of the Ebac-refold with Mg2+ simulation.
Elevated temperature simulation.