Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy
Fig 4
(A, B) The representative structures from the CGMD simulations of the open (A) and closed hinge (B) with dsDNA (the coordinates are available in S1 and S2 Data). (C, D) dsDNA contact probabilities mapped on the open (C) and closed (D) hinge structures. Darker red particles contact with DNA with a higher probability. (E, F) Surface charges mapped on the open (E) and closed (F) hinge structures. (G, H) The survival probability plots for the Ycg1/dsDNA, Ycs4/dsDNA, and hinge/dsDNA binding in 400 (G) and 200 (H) mM salt concentration conditions, respectively. P represents the probability of DNA binding on the indicated region after a certain duration.