T7 RNA Polymerase: Difference between revisions

Line 1:

==T7 RNA Polymerase Initiation Complex==

'''Promoter binding'''. T7 RNA polymerase <scene name='77/778917/T7rp_promo_bound_basic/1'>binds and melts into dsDNA</scene>, by recognizing the upstream duplex region of the promoter (-17 to -5), and then melting a bubble (-4 to about +3), within the larger duplex. The duplex promoter domain binds primarily to the N-terminal domain of the enzyme, with the exception of the (C-terminal domain) "<scene name='77/778917/T7rp_promo_bound_specif_loop_z/2'>specificity loop</scene>." It is the combination of the N-terminal domain, with the positioned specificity loop, that forms the specific binding surface.

'''Promoter binding'''. T7 RNA polymerase <scene name='77/778917/T7rp_promo_bound_basic/1'>binds and melts into dsDNA</scene>, by recognizing the <scene name='77/778917/T7rp_promo_highlight_aa/1'>upstream duplex region</scene> of the promoter (-17 to -5), and then melting a bubble (-4 to about +3), within the larger duplex. The duplex promoter domain binds primarily to the N-terminal domain of the enzyme, with the exception of the (C-terminal domain) "<scene name='77/778917/T7rp_promo_bound_specif_loop_z/2'>specificity loop</scene>." It is the combination of the N-terminal domain, with the positioned specificity loop, that forms the specific binding surface.

'''Intercalating loop stabilizes the melted complex'''. Strong interactions with the duplex region of the promoter places the "<scene name='77/778917/T7rp_promo_bound_val_loop_z/1'>intercalating loop</scene>" into the DNA between residues -4 and -5. The intercalating loop, also called the Valine Loop, has hydrophobic residues Val, Ile, etc that stack on and stabilize the exposed face of the base pair at position -5, stabilizing the locally melted structure.

T7 RNA Polymerase: Difference between revisions

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
 ==T7 RNA Polymerase Initiation Complex==
 <StructureSection load='1qln' size='450' side='right' caption='Promoter bound polymerase (PDB code [[1qln]])' scene=''>
-'''Promoter binding'''. T7 RNA polymerase <scene name='77/778917/T7rp_promo_bound_basic/1'>binds and melts into dsDNA</scene>, by recognizing the upstream duplex region of the promoter (-17 to -5), and then melting a bubble (-4 to about +3), within the larger duplex. The duplex promoter domain binds primarily to the N-terminal domain of the enzyme, with the exception of the (C-terminal domain) "<scene name='77/778917/T7rp_promo_bound_specif_loop_z/2'>specificity loop</scene>." It is the combination of the N-terminal domain, with the positioned specificity loop, that forms the specific binding surface.
+'''Promoter binding'''. T7 RNA polymerase <scene name='77/778917/T7rp_promo_bound_basic/1'>binds and melts into dsDNA</scene>, by recognizing the <scene name='77/778917/T7rp_promo_highlight_aa/1'>upstream duplex region</scene> of the promoter (-17 to -5), and then melting a bubble (-4 to about +3), within the larger duplex. The duplex promoter domain binds primarily to the N-terminal domain of the enzyme, with the exception of the (C-terminal domain) "<scene name='77/778917/T7rp_promo_bound_specif_loop_z/2'>specificity loop</scene>." It is the combination of the N-terminal domain, with the positioned specificity loop, that forms the specific binding surface.
 '''Intercalating loop stabilizes the melted complex'''. Strong interactions with the duplex region of the promoter places the "<scene name='77/778917/T7rp_promo_bound_val_loop_z/1'>intercalating loop</scene>" into the DNA between residues -4 and -5. The intercalating loop, also called the Valine Loop, has hydrophobic residues Val, Ile, etc that stack on and stabilize the exposed face of the base pair at position -5, stabilizing the locally melted structure.