DNA Polymerase I: Difference between revisions
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<applet load='2ktq.pdb' size='450' frame='true' align='right' caption='Klentaq1–Open conformation' scene= 'Sandbox_dvoet/DNA_polymerase/Klentaq1-open_conformation/2'/> | <applet load='2ktq.pdb' size='450' frame='true' align='right' caption='Klentaq1–Open conformation' scene= 'Sandbox_dvoet/DNA_polymerase/Klentaq1-open_conformation/2'/> | ||
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Here, Klentaq1's N-terminal, palm, fingers and thumb domains are yellow, magenta, green, and blue, respectively. The DNA is drawn in stick form colored according to atom type (template C cyan, primer C green, N blue, O red, and P orange). | Here, Klentaq1's N-terminal, palm, fingers and thumb domains are yellow, magenta, green, and blue, respectively. The DNA is drawn in stick form colored according to atom type (template C cyan, primer C green, N blue, O red, and P orange). | ||
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<applet load='2ktq.pdb' size='450' frame='true' align='right' caption='Klentaq1–Open closeup' scene= 'Sandbox_dvoet/DNA_polymerase/Klentaq1-open_closeup/6'/> | <applet load='2ktq.pdb' size='450' frame='true' align='right' caption='Klentaq1–Open closeup' scene= 'Sandbox_dvoet/DNA_polymerase/Klentaq1-open_closeup/6'/> | ||
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A closeup of the active site region in the open conformation (''right'') reveals that the side chain of the conserved Tyr 671 (colored with C pink) is stacked on top of the template G that forms a base pair with the bound ddCTP, where it apparently participates in verifying that a Watson–Crick base pair has formed. In the closed conformation (''left''), Tyr 671, which is part of the fingers domain, has moved aside, presumably to permit the active site to form about the incoming dNTP (satisfy yourself that the Tyr 671 side chain is stacked on the template G in the open form but not in the closed form). | A closeup of the active site region in the open conformation (''right'') reveals that the side chain of the conserved Tyr 671 (colored with C pink) is stacked on top of the template G that forms a base pair with the bound ddCTP, where it apparently participates in verifying that a Watson–Crick base pair has formed. In the closed conformation (''left''), Tyr 671, which is part of the fingers domain, has moved aside, presumably to permit the active site to form about the incoming dNTP (satisfy yourself that the Tyr 671 side chain is stacked on the template G in the open form but not in the closed form). | ||
