View source for 3rfj


==Design of a binding scaffold based on variable lymphocyte receptors of jawless vertebrates by module engineering==
<StructureSection load='3rfj' size='340' side='right'caption='[[3rfj]], [[Resolution|resolution]] 1.78&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3rfj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Listeria_monocytogenes_08-5923 Listeria monocytogenes 08-5923], [https://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RFJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RFJ FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.78&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=3rfj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfj OCA], [https://pdbe.org/3rfj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rfj RCSB], [https://www.ebi.ac.uk/pdbsum/3rfj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rfj ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q6E4K6_PETMA Q6E4K6_PETMA] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Repeat proteins have recently been of great interest as potential alternatives to immunoglobulin antibodies due to their unique structural and biophysical features. We here present the development of a binding scaffold based on variable lymphocyte receptors, which are nonimmunoglobulin antibodies composed of Leucine-rich repeat modules in jawless vertebrates, by module engineering. A template scaffold was first constructed by joining consensus repeat modules between the N- and C-capping motifs of variable lymphocyte receptors. The N-terminal domain of the template scaffold was redesigned based on the internalin-B cap by analyzing the modular similarity between the respective repeat units using a computational approach. The newly designed scaffold, termed "Repebody," showed a high level of soluble expression in bacteria, displaying high thermodynamic and pH stabilities. Ease of molecular engineering was shown by designing repebodies specific for myeloid differentiation protein-2 and hen egg lysozyme, respectively, by a rational approach. The crystal structures of designed repebodies were determined to elucidate the structural features and interaction interfaces. We demonstrate general applicability of the scaffold by selecting repebodies with different binding affinities for interleukin-6 using phage display.

Design of a binding scaffold based on variable lymphocyte receptors of jawless vertebrates by module engineering.,Lee SC, Park K, Han J, Lee JJ, Kim HJ, Hong S, Heu W, Kim YJ, Ha JS, Lee SG, Cheong HK, Jeon YH, Kim D, Kim HS Proc Natl Acad Sci U S A. 2012 Feb 28;109(9):3299-304. Epub 2012 Feb 10. PMID:22328160<ref>PMID:22328160</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3rfj" style="background-color:#fffaf0;"></div>

==See Also==
*[[Variable lymphocyte receptor 3D structures|Variable lymphocyte receptor 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Listeria monocytogenes 08-5923]]
[[Category: Petromyzon marinus]]
[[Category: Synthetic construct]]
[[Category: Cheong HK]]
[[Category: Jeon YH]]
[[Category: Kim HJ]]