Figure 2 | Scientific Reports

Figure 2

From: Probing the Behaviour of Cas1-Cas2 upon Protospacer Binding in CRISPR-Cas Systems using Molecular Dynamics Simulations

Figure 2

Comparative MD analyses of the DNA-free (purple), PAM-absent (yellow) and PAM-present (blue) systems. (a) The RMSDs of backbone atoms versus simulation time. (b) The probability distribution of RMSDs calculated from the equilibrium trajectories. (c) The RMSFs of the PAM-absent and PAM-present systems calculated from the equilibrium trajectories (left), and a magnified RMSFs view of DNA for clarity (right). (d) The representations of common regions of PAM-absent (left) and PAM-present (right) systems. The residues in red have relatively higher RMSF values (>2.5 Å) while the ones in blue have relatively lower RMSF values (<1.5 Å). The other regions are colored white.

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