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Lec4_2_web - DNA Structure Polynucleotides in a helical...

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DNA Structure Polynucleotides in a helical arrangement display order which can be described in terms of helical parameters. 1. Strand orientation – parallel or antiparallel 2. Helix configuration – right-handed or left-handed 3. Base spacing or stacking – in Å 4. Base pairing – Watson-Crick or non-Watson-Crick pairing. 5. Number of bases or base-pairs per turn of helix. 6. Base rotation – degrees of rotation per base, looking down the center of the helix. 1. Pitch – number of Å per complete turn of the helix. 2. Base orientation – syn versus anti 3. Base positioning – with respect to the helix center. 4. Sugar conformation – sugar pucker, 2’- or 3’-endo or –exo. 5. Base tilt – the angle with regard to the helix backbone 6. Base twist – aka propeller twist. 7. Helix width 8. Major / Minor groove configuration – double-helical RNAs and DNAs exhibit characteristic groves. 9. DNA hydration – the amount of water molecules associated with the dsDNA chain. Adjacent (stacked) bases Rotation degrees
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Putting these together in a single description: - Double-stranded, right-handed, antiparallel helix using Watson-Crick base-pairs; 3.4 Å spacing, 10.6 base-pairs per turn with a pitch of 36 Å and helix width of 20 Å; The bases are in the helix center with anti-configuration and C2’-endo sugar pucker.
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