2i13: Difference between revisions
New page: left|200px<br /><applet load="2i13" size="450" color="white" frame="true" align="right" spinBox="true" caption="2i13, resolution 1.960Å" /> '''Aart, a six finger ... |
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[[Image:2i13.gif|left|200px]]<br /><applet load="2i13" size=" | [[Image:2i13.gif|left|200px]]<br /><applet load="2i13" size="350" color="white" frame="true" align="right" spinBox="true" | ||
caption="2i13, resolution 1.960Å" /> | caption="2i13, resolution 1.960Å" /> | ||
'''Aart, a six finger zinc finger designed to recognize ANN triplets'''<br /> | '''Aart, a six finger zinc finger designed to recognize ANN triplets'''<br /> | ||
==Overview== | ==Overview== | ||
Cys2-His2 zinc fingers are one of the most common types of DNA-binding | Cys2-His2 zinc fingers are one of the most common types of DNA-binding domains. Modifications to zinc-finger binding specificity have recently enabled custom DNA-binding proteins to be designed to a wide array of target sequences. We present here a 1.96 A structure of Aart, a designed six-zinc finger protein, bound to a consensus DNA target site. This is the first structure of a designed protein with six fingers, and was intended to provide insights into the unusual affinity and specificity characteristics of this protein. Most protein-DNA contacts were found to be consistent with expectations, while others were unanticipated or insufficient to explain specificity. Several were unexpectedly mediated by glycerol, water molecules or amino acid-base stacking interactions. These results challenge some conventional concepts of recognition, particularly the finding that triplets containing 5'A, C, or T are typically not specified by direct interaction with the amino acid in position 6 of the recognition helix. | ||
==About this Structure== | ==About this Structure== | ||
2I13 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] with ZN and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http:// | 2I13 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] with <scene name='pdbligand=ZN:'>ZN</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I13 OCA]. | ||
==Reference== | ==Reference== | ||
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[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Bhakta, M.]] | [[Category: Bhakta, M.]] | ||
[[Category: Crotty, J | [[Category: Crotty, J W.]] | ||
[[Category: Horton, N | [[Category: Horton, N C.]] | ||
[[Category: III, C | [[Category: III, C F.Barbas.]] | ||
[[Category: Segal, D | [[Category: Segal, D J.]] | ||
[[Category: GOL]] | [[Category: GOL]] | ||
[[Category: ZN]] | [[Category: ZN]] | ||
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[[Category: zinc finger]] | [[Category: zinc finger]] | ||
''Page seeded by [http:// | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:47:55 2008'' | ||
Revision as of 15:47, 21 February 2008
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Aart, a six finger zinc finger designed to recognize ANN triplets
Overview
Cys2-His2 zinc fingers are one of the most common types of DNA-binding domains. Modifications to zinc-finger binding specificity have recently enabled custom DNA-binding proteins to be designed to a wide array of target sequences. We present here a 1.96 A structure of Aart, a designed six-zinc finger protein, bound to a consensus DNA target site. This is the first structure of a designed protein with six fingers, and was intended to provide insights into the unusual affinity and specificity characteristics of this protein. Most protein-DNA contacts were found to be consistent with expectations, while others were unanticipated or insufficient to explain specificity. Several were unexpectedly mediated by glycerol, water molecules or amino acid-base stacking interactions. These results challenge some conventional concepts of recognition, particularly the finding that triplets containing 5'A, C, or T are typically not specified by direct interaction with the amino acid in position 6 of the recognition helix.
About this Structure
2I13 is a Single protein structure of sequence from Mus musculus with ZN and GOL as ligands. Full crystallographic information is available from OCA.
Reference
Structure of Aart, a designed six-finger zinc finger peptide, bound to DNA., Segal DJ, Crotty JW, Bhakta MS, Barbas CF 3rd, Horton NC, J Mol Biol. 2006 Oct 20;363(2):405-21. Epub 2006 Aug 11. PMID:16963084
Page seeded by OCA on Thu Feb 21 17:47:55 2008
