2i13

From Proteopedia

(Difference between revisions)

Revision as of 10:24, 12 January 2022

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

Structural highlights

2i13 is a 6 chain structure with sequence from Lk3 transgenic mice. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
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.

Publication Abstract from PubMed

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.

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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Segal DJ, Crotty JW, Bhakta MS, Barbas CF 3rd, Horton NC. Structure of Aart, a designed six-finger zinc finger peptide, bound to DNA. J Mol Biol. 2006 Oct 20;363(2):405-21. Epub 2006 Aug 11. PMID:16963084 doi:10.1016/j.jmb.2006.08.016

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2i13"

@@ Line 3: / Line 3: @@
 <StructureSection load='2i13' size='340' side='right'caption='[[2i13]], [[Resolution|resolution]] 1.96&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2i13]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. 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 [http://proteopedia.org/fgij/fg.htm?mol=2I13 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2i13]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. 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>
 </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>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2i13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i13 OCA], [http://pdbe.org/2i13 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2i13 RCSB], [http://www.ebi.ac.uk/pdbsum/2i13 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2i13 ProSAT]</span></td></tr>
+<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>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/ZSCA2_MOUSE ZSCA2_MOUSE]] May be involved in transcriptional regulation during the post-meiotic stages of spermatogenesis.
+[[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]]
@@ Line 28: / Line 28: @@
 </div>
 <div class="pdbe-citations 2i13" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[Alpha helix|Alpha helix]]
 == References ==
 <references/>

2i13

From Proteopedia

Revision as of 10:24, 12 January 2022

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

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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