Figure 6
From: Domain motions of Argonaute, the catalytic engine of RNA interference
Argonaute normal modes. (a) Hinge motion (lowest frequency mode) between the N-domain and PAZ-domain of Pf-Ago. The hinge region, determined by Hingefind [24], is located between PAZ and N-terminal domains. (b) Torsional motion of Pf-Ago. In addition to the major torsion between the Mid-PIWI domains and the N-terminal domain, a torsion between PAZ domain with the rest of the protein was observed. (c) Breathing motion of Pf- Ago. Four domains synchronously move outwards/inwards to increase/reduce the volume of the protein. (d) Hinge motion (lowest frequency mode) between PAZ-containing lobe and PIWI-containing lobe in Aa-Ago. Red line, rotational axis of the hinge motion. Residues within 3.5 Å of the axis shown in van der Waals spheres. (e) Torsional motion (second lowest frequency mode) of Aa- Ago. A major torsion between the Mid-PIWI domains and the N-terminal domain was observed, while the PAZ domain moves associated with the Mid and PIWI domains. This motion changes the space spanned by the two lobes. (f) Breathing motion (the third lowest frequency mode) of Aa- Ago. PAZ domain, N-terminal domain and PIWI domain synchronously move outwards/inwards to increase/reduce the volume of the protein. Arrows added to Cα atoms represent orientation and amplitude of the Cα's displacement in the mode.