2i13: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
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 ...
 
No edit summary
 
(14 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:2i13.gif|left|200px]]<br /><applet load="2i13" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2i13, resolution 1.960&Aring;" />
'''Aart, a six finger zinc finger designed to recognize ANN triplets'''<br />


==Overview==
==Aart, a six finger zinc finger designed to recognize ANN triplets==
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.
<StructureSection load='2i13' size='340' side='right'caption='[[2i13]], [[Resolution|resolution]] 1.96&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[2i13]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I13 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2I13 FirstGlance]. <br>
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://ispc.weizmann.ac.il/oca-bin/ocashort?id=2I13 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.96&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2i13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i13 OCA], [https://pdbe.org/2i13 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2i13 RCSB], [https://www.ebi.ac.uk/pdbsum/2i13 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2i13 ProSAT]</span></td></tr>
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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16963084 16963084]
</table>
== Function ==
[https://www.uniprot.org/uniprot/ZSCA2_MOUSE ZSCA2_MOUSE] May be involved in transcriptional regulation during the post-meiotic stages of spermatogenesis.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i1/2i13_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2i13 ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Single protein]]
[[Category: Barbas III CF]]
[[Category: Bhakta, M.]]
[[Category: Bhakta M]]
[[Category: Crotty, J.W.]]
[[Category: Crotty JW]]
[[Category: Horton, N.C.]]
[[Category: Horton NC]]
[[Category: III, C.F.Barbas.]]
[[Category: Segal DJ]]
[[Category: Segal, D.J.]]
[[Category: GOL]]
[[Category: ZN]]
[[Category: dna binding]]
[[Category: zinc finger]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 12:05:40 2007''

Latest revision as of 12:00, 21 February 2024

Aart, a six finger zinc finger designed to recognize ANN tripletsAart, a six finger zinc finger designed to recognize ANN triplets

Structural highlights

2i13 is a 6 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.96Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ZSCA2_MOUSE May be involved in transcriptional regulation during the post-meiotic stages of spermatogenesis.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

2i13, resolution 1.96Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=2i13&oldid=4061894"