A DNA packaging motor inchworms along one strand allowing it to adapt to alternative double-helical structures

Ring ATPases that translocate disordered polymers possess lock-washer architectures that they impose on their substrates during transport via a hand-over-hand mechanism. Here, we investigate the operation of ring motors that transport ordered, helical substrates, such as the bacteriophage ϕ29 dsDNA packaging motor. This pentameric motor alternates between an ATP loading dwell and a hydrolysis burst wherein it packages one turn of DNA in four steps. When challenged with DNA-RNA hybrids and dsRNA, the motor matches its burst to the shorter helical pitches, keeping three power strokes invariant while shortening the fourth. Intermittently, the motor loses grip on the RNA-containing substrates, indicating that it makes optimal load-bearing contacts with dsDNA. To rationalize these observations, we propose a helical inchworm translocation mechanism in which, during each cycle, the motor increasingly adopts a lock-washer structure during the ATP loading dwell and successively regains its planar form with each power stroke during the burst.

A DNA translocase operates by cycling between planar and lock-washer structures

Ring ATPases that translocate disordered polymers possess lock-washer architectures that they impose on their substrates during transport via a hand-over-hand mechanism. Here, we investigate the operation of ring motors that transport substrates possessing a preexisting helical structure, such as the bacteriophage ϕ29 dsDNA packaging motor. During each cycle, this pentameric motor tracks one helix strand (the ‘tracking strand’), and alternates between two segregated phases: a dwell in which it exchanges ADP for ATP and a burst in which it packages a full turn of DNA in four steps. We challenge this motor with DNA-RNA hybrids and dsRNA substrates and find that it adapts the size of its burst to the corresponding shorter helical pitches by keeping three of its power strokes invariant while shortening the fourth. Intermittently, the motor loses grip when the tracking strand is RNA, indicating that it makes load-bearing contacts with the substrate that are optimal with dsDNA. The motor possesses weaker grip when ADP-bound at the end of the burst. To rationalize all these observations, we propose a helical inchworm translocation mechanism in which the motor increasingly adopts a lock-washer structure during the ATP loading dwell and successively regains its planar form with each power stroke during the burst.

A study on the importance of isolation of the active regions for high performance organic circuits

ABSTRACTThe authors present electrical comparisons on an array of test structures including organic lateral diodes and thin film transistors (OTFT), fabricated with a range of disordered and polycrystalline organic semiconductors, to examine the increasing need for effective isolation for organic-based circuits. As the minimum feature size decreases, circuit components become closely positioned, which leads to increased electrical crosstalk. The organic semiconductors utilised for this work include solution-processable organic semiconductors such as disordered polymers P3HT and PTAA, and a polycrystalline material TIPS-pentacene. In order to predict the magnitude required for isolation for the different semiconductors, simple test structures have been designed consisting of two gold electrodes separated by a distance ranging from 4 μm up to 2000 μm. The bulk conductivity from such test structures provides the limits at which circuit components may be placed for crosstalk free operation. The work presented culminates in the development of an isolation layer to help reduce the off-currents and gate leakages of the OTFTs.

SPATIO-TEMPORAL THERMAL FLUCTUATIONS AND LOCAL SUSCEPTIBILITY IN DISORDERED POLYMERS

Spatial and temporal fluctuations of the electric polarization were imaged in polymer thin films near the glass transition using electric force microscopy. Below the glass transition the fluctuations are quasi-static and spatial fluctuations were found to quantitatively agree with predictions for thermal fluctuations. Temporal fluctuations appear near the glass transition. Images of the space-time nanoscale dynamics near the glass transition are produced and analyzed. Local, complex dielectric susceptibility was also studied, and shows that dynamics on the free-surface are faster relative to the bulk.