IGEM:Harvard/2006/Folding DNA nanostructures

Six-helix bundles

 * 4.5 p7308 scaffold (44 nM)
 * 2 oligos (990 nM)
 * 2 10x folding buffer (500 mM HEPES pH 7.5, 500 mM NaCl, 100 mM )
 * 11.5 d

Our structures

 * 4.5 p7308 scaffold (44 nM)
 * 8 oligos (250 nM)
 * 2 10x folding buffer (500 mM HEPES pH 7.5, 500 mM NaCl, 100 mM )
 * 5.5 d

Annealing protocols
Don't use higher than 50 volumes in any one tube, because thermal cycling is unreliable otherwise or
 * 90 5' &rarr; 65 20' &rarr; 55 20' &rarr; 45 20' &rarr; 37 30'
 * start at 80, decrement 1 every 2 min. for 60 cycles.

Gel Analysis

 * Run 2% agarose gel, supplemented to 10 mM
 * Also supplement 1x TBE to 11 mM
 * Run at low voltage (80V) for 1 hour (longer if necessary)