(A) Conformational states of the RNAP clamp (two orthogonal views). Structure of RNAP showing open (red), partly closed (yellow), and fully closed (green) clamp conformations, as observed in crystal structures (PDB 1I3Q, PDB 1HQM, PDB 1I6H). Circle, switch region; dashed circle, binding site for rifamycins; violet sphere, active-center Mg2+.
(B) Conformational states of the RNAP switch region (stereoview). Structure of RNAP switch 1 and RNAP switch 2 (β′ residues 1304–1329 and β′ residues 330–349; residues numbered as in E. coli RNAP) showing conformational states associated with open (red), partly closed (yellow), and fully closed (green) clamp conformations, as observed in crystal structures (PDB 1I3Q, PDB 1HQM, PDB 1I6H). Gray squares, points of connection of switch 1 and switch 2 to the RNAP main mass. Colored circles, points of connection of switch 1 and switch 2 to the RNAP clamp.
(C) Structures of myxopyronin A (Myx), corallopyronin A (Cor), and ripostatin A (Rip).