CV:NASBO: Difference between revisions
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===Definition=== | ===Definition=== | ||
The simple base pair opening for the A:B base pair. This is an earlier implementation providing only opening, full set of simple base pair parameters is availble via [[CV: | The simple base pair opening for the A:B base pair. This is an earlier implementation providing only opening, full set of simple base pair parameters is availble via [[CV:NASBPP]]. | ||
'''IMPORTANT:''' It is critical that the A and B bases are not separated during simulation due to imaging of DNA chains into the simulation box. Use ether topjoinmol from CATs to merge both chains into a single molecule or use the correct value of iwrap in sander or pmemd. | '''IMPORTANT:''' It is critical that the A and B bases are not separated during simulation due to imaging of DNA chains into the simulation box. Use ether topjoinmol from CATs to merge both chains into a single molecule or use the correct value of iwrap in sander or pmemd. | ||