B-DNA tour: Difference between revisions

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Start the tour with this <scene name='72/725442/B-dna_overview/1'>Overview</scene> view. Now look at this <scene name='72/725442/Space_filling_view/1'>space filling view</scene>.The backbone is yellow and the bases are magenta. You can compare it with the other DNA forms by  
Start the tour with this <scene name='72/725442/B-dna_overview/1'>Overview</scene> view. Now look at this <scene name='72/725442/Space_filling_view/1'>space filling view</scene>.The backbone is yellow and the bases are magenta. You can compare it with the other DNA forms by  
Note that the major groove (at the top, when you have just clicked the button)
is wide and easily accessible.
Now change the display to make it show the <scene name='72/725442/Space_filling_bbone/1'>sugar-phosphate backbone as pseudo-bonds</scene>  connecting the phosphate atoms.  Now the bases are easier to see. Notice how they are stacked upon each other and are nearly perpendicular to the axis of the double helix. Note also that the backbone forms a smooth, continuous curve.


You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.

Revision as of 19:09, 20 February 2016

B-form DNAB-form DNA

  • Most common DNA conformation in vivo
  • Narrower, more elongated helix than A.
  • Wide major groove easily accessible to proteins
  • Narrow minor groove
  • Favored conformation at high water concentrations (hydration of minor groove seems to favor B-form)
  • Base pairs nearly perpendicular to helix axis
  • Sugar pucker C2'-endo

Start the tour with this view. Now look at this .The backbone is yellow and the bases are magenta. You can compare it with the other DNA forms by

Note that the major groove (at the top, when you have just clicked the button)

is wide and easily accessible.

Now change the display to make it show the connecting the phosphate atoms. Now the bases are easier to see. Notice how they are stacked upon each other and are nearly perpendicular to the axis of the double helix. Note also that the backbone forms a smooth, continuous curve.

You may include any references to papers as in: the use of JSmol in Proteopedia [1] or to the article describing Jmol [2] to the rescue.

Function

Disease

Relevance

Structural highlights

This is a sample scene created with SAT to , and another to make of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.


B-DNA

Drag the structure with the mouse to rotate

ReferencesReferences

R. E. Dickerson, H. R. Drew, B. N. Conner, R. M. Wing, A. V. Fratini & M. L. Kopka (1982) The anatomy of A-, B-, and Z-DNA. Science 216: 475-485 [3]

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

James Nolan, Eric Martz
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