IsRNAcirc: 3D structure prediction of circular RNAs based on coarse-grained molecular dynamics simulation
Fig 5
A representative prediction for internal-circular RNAs.
(A) Predicted 2D structure of MBOTA2 consisting of 224 nucleotides (circRNA ID: hsa_circ_0007334), in which the BSJ is located in the 1x1 internal loop (marked by red arrow). (B) Superposition of the initial linear 3D structure (colored by light brown) and the predicted 3D structure of MBOTA2 by IsRNAcirc (colored by light blue). (C-D) Zoom-in show the local details of 3D models: (C) the presence of sharp twist of backbone in the initial 3D structure and (D) the optimized topology in the 3D model predicted by IsRNAcirc. The atoms carbon, oxygen, and nitrogen are colored by silver, red, and blue, respectively.