Base Pair Geometries

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klm46
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Base Pair Geometries

Post by klm46 » Tue Dec 01, 2009 1:06 am

Hey, confused on this point:

Are base pair properties such as roll and tilt defined to be relative to the adjacent base pair, or relative to the helical axis? eg. Is tilt the angle a base pair makes with a line perpindicular to the helical axis, or is it the angle it makes with the adjacent base?

I have been scanning over as many relevant papers as I can find, but am more confused than when I started - there does not seem to be much of a consensus.

Thanks

kolean
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Post by kolean » Tue Dec 01, 2009 2:19 pm

Relative to the helical axis.

Is this about the different DNAs?

http://en.wikipedia.org/wiki/Z-DNA
to go with:
http://en.wikipedia.org/wiki/File:A-DNA ... _Z-DNA.png

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zami'87.
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Re: Base Pair Geometries

Post by zami'87. » Sat Dec 05, 2009 3:10 am

Check Understanding DNA by Calladine and Drew.They explain geometry of DNA and connect it with sequence..propeller twisted AA/TT with little roll and slide values(around 0 if you look plot) , GG/CC repel when slide is near zero(forbidden zone)..so they're moved(bistable on plot), CA/TG with wide range of slide and roll values. I haven't read the whole book so far but I must admit that it's very interesting :wink:
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