Extended Data Fig. 2: RNP Interactions and Active Conformations.
From: RNA control of reverse transcription in a diversity-generating retroelement
a bRT (red) superposed with the group II intron RT GsI-IIC (blue) in ‘right-hand’ view of polymerases. Subdomains of the RTs are indicated. GsI-IIC has a D domain that is not present in bRT or other DGR RTs. b. Interaction between bRT E40 and Avd R79 and R83. Avd R79A and R83A do not bind bRT and cause loss of function13. Coloring as in Fig. 2a. c. Interaction of bRT NTE with TRG117 and Avd. Interacting amino acids in bonds representation (carbon yellow for bRT, salmon for Avd, and cyan for TRG117; oxygen red; nitrogen blue; and phosphorus orange). d. Superposition of Active G:dCTP (blue, Complex 1 in Extended Data Table 1), Active A:Empty (red, Complex 2), and Active G:Empty RNPs (green, Complex 3). Root mean square deviation of 1.6 Å for 10,218 atoms between Active G:dCTP and Active A:Empty RNPs, and 0.7 Å for 10,265 atoms between Active G:dCTP and Active A:Empty RNPs. e. Model of bRT-Avd-Fae:RNAΔ98 complex. Fae (red, PDB 1Y60) was placed at the wide end of the Avd barrel for visual purposes. No interpretable density exists for Fae. Coloring as in Fig. 1d. Dotted line indicates potential location of intact TR.
