Figure 5.

(A) The RMSDs and their distribution calculated on P, O3′, O5′, C3′, C4′, and C5′ atoms of the nucleotides of GR(C74U) relative to their starting structures. (B) The superimposition of two representative structures from Apo-GR(C74U) and one from the complex. All structures are shown in new cartoon representation. The P1J23 regions are shown in different colors. The open and closed conformations of Apo-GR(C74U) are in blue and yellow, while they are in green for the complex. (C) Root-mean-square fluctuations (RMSFs) for the P, O3′, O5’, C3′, C4′, and C5′ atoms of the nucleotides labeled in different regions. The experimental RMSFs from the B-factor are also given. (D) D1 versus the MD time for GR(C74U).