1s9f
From Proteopedia
(New page: 200px<br /><applet load="1s9f" size="450" color="white" frame="true" align="right" spinBox="true" caption="1s9f, resolution 2.00Å" /> '''DPO with AT matched'...) |
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| - | [[Image:1s9f.gif|left|200px]]<br /><applet load="1s9f" size=" | + | [[Image:1s9f.gif|left|200px]]<br /><applet load="1s9f" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1s9f, resolution 2.00Å" /> | caption="1s9f, resolution 2.00Å" /> | ||
'''DPO with AT matched'''<br /> | '''DPO with AT matched'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The ability or inability of a DNA polymerase to extend a mispair directly | + | The ability or inability of a DNA polymerase to extend a mispair directly affects the establishment of genomic mutations. We report here kinetic analyses of the ability of Dpo4, a Y-family polymerase from Sulfolobus solfataricus, to extend from all mispairs opposite a template G or T. Dpo4 is equally inefficient at extending these mispairs, which include, surprisingly, a G.T mispair expected to conform closely to Watson-Crick geometry. To elucidate the basis of this, we solved the structure of Dpo4 bound to G.T-mispaired primer template in the presence of an incoming nucleotide. As a control, we also determined the structure of Dpo4 bound to a matched A-T base pair at the primer terminus. The structures offer a basis for the low efficiency of Dpo4 in extending a G.T mispair: a reverse wobble that deflects the primer 3'-OH away from the incoming nucleotide. |
==About this Structure== | ==About this Structure== | ||
| - | 1S9F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus] with CA, MG and DDY as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] Full crystallographic information is available from [http:// | + | 1S9F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus] with <scene name='pdbligand=CA:'>CA</scene>, <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=DDY:'>DDY</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S9F OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Sulfolobus solfataricus]] | [[Category: Sulfolobus solfataricus]] | ||
| - | [[Category: Aggarwal, A | + | [[Category: Aggarwal, A K.]] |
| - | [[Category: Escalante, C | + | [[Category: Escalante, C R.]] |
| - | [[Category: Johnson, R | + | [[Category: Johnson, R E.]] |
[[Category: Prakash, L.]] | [[Category: Prakash, L.]] | ||
[[Category: Prakash, S.]] | [[Category: Prakash, S.]] | ||
[[Category: Trincao, J.]] | [[Category: Trincao, J.]] | ||
| - | [[Category: Wolfle, W | + | [[Category: Wolfle, W T.]] |
[[Category: CA]] | [[Category: CA]] | ||
[[Category: DDY]] | [[Category: DDY]] | ||
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[[Category: protein-dna complex]] | [[Category: protein-dna complex]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:59:14 2008'' |
Revision as of 12:59, 21 February 2008
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DPO with AT matched
Overview
The ability or inability of a DNA polymerase to extend a mispair directly affects the establishment of genomic mutations. We report here kinetic analyses of the ability of Dpo4, a Y-family polymerase from Sulfolobus solfataricus, to extend from all mispairs opposite a template G or T. Dpo4 is equally inefficient at extending these mispairs, which include, surprisingly, a G.T mispair expected to conform closely to Watson-Crick geometry. To elucidate the basis of this, we solved the structure of Dpo4 bound to G.T-mispaired primer template in the presence of an incoming nucleotide. As a control, we also determined the structure of Dpo4 bound to a matched A-T base pair at the primer terminus. The structures offer a basis for the low efficiency of Dpo4 in extending a G.T mispair: a reverse wobble that deflects the primer 3'-OH away from the incoming nucleotide.
About this Structure
1S9F is a Single protein structure of sequence from Sulfolobus solfataricus with , and as ligands. Active as DNA-directed DNA polymerase, with EC number 2.7.7.7 Full crystallographic information is available from OCA.
Reference
Dpo4 is hindered in extending a G.T mismatch by a reverse wobble., Trincao J, Johnson RE, Wolfle WT, Escalante CR, Prakash S, Prakash L, Aggarwal AK, Nat Struct Mol Biol. 2004 May;11(5):457-62. Epub 2004 Apr 11. PMID:15077104
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