2i13

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[[Image:2i13.gif|left|200px]]
[[Image:2i13.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 2i13 |SIZE=350|CAPTION= <scene name='initialview01'>2i13</scene>, resolution 1.960&Aring;
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The line below this paragraph, containing "STRUCTURE_2i13", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY=
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or leave the SCENE parameter empty for the default display.
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|GENE=
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|DOMAIN=
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{{STRUCTURE_2i13| PDB=2i13 | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2i13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i13 OCA], [http://www.ebi.ac.uk/pdbsum/2i13 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2i13 RCSB]</span>
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}}
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'''Aart, a six finger zinc finger designed to recognize ANN triplets'''
'''Aart, a six finger zinc finger designed to recognize ANN triplets'''
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[[Category: III, C F.Barbas.]]
[[Category: III, C F.Barbas.]]
[[Category: Segal, D J.]]
[[Category: Segal, D J.]]
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[[Category: dna binding]]
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[[Category: Dna binding]]
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[[Category: zinc finger]]
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[[Category: Zinc finger]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 06:56:51 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:38:14 2008''
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Revision as of 03:56, 4 May 2008

Image:2i13.gif

Template:STRUCTURE 2i13

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. 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 Sun May 4 06:56:51 2008

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