Base stacking: Difference between revisions
From Proteopedia
Jump to navigationJump to search
No edit summary |
No edit summary |
||
| Line 5: | Line 5: | ||
== Examples of base stacking == | == Examples of base stacking == | ||
# '''DNA double helix''': In <scene name='80/804504/Dna/3'>double-stranded DNA</scene>, bases from two strands pair up to form base pairs, which are stacked along the helix axis of the double strand. | # '''DNA double helix''': In <scene name='80/804504/Dna/3'>double-stranded DNA</scene>, bases from two strands pair up to form base pairs, which are stacked along the helix axis of the double strand. Zooming in to a detailed view of a <scene name='80/804504/Dna/4'>G:C base pair</scene>, the extent of the stacking contacts are determined by the sequence. G:C base pairs contribute more to the thermal stability of DNA than A:T base pairs because they stack better. | ||
# '''RNA kissing loops''': <scene name='80/804504/Kissing_loop/2'>Loops on two separate RNA pieces</scene> are held together by stacking interactions (between base pairs) and hydrogen bonds (within base pairs). | # '''RNA kissing loops''': <scene name='80/804504/Kissing_loop/2'>Loops on two separate RNA pieces</scene> are held together by stacking interactions (between base pairs) and hydrogen bonds (within base pairs). | ||
# '''RNA single strand bound to a protein''': In this <scene name='80/804504/Intercalation/2'>complex of RNA bound to a protein</scene>, some of the stacking interactions are disrupted by amino acid side chains (such as arginine, histidine and tyrosine) intercalating between adjacent bases. <jmol> | # '''RNA single strand bound to a protein''': In this <scene name='80/804504/Intercalation/2'>complex of RNA bound to a protein</scene>, some of the stacking interactions are disrupted by amino acid side chains (such as arginine, histidine and tyrosine) intercalating between adjacent bases. <jmol> | ||
