View source for 8ftt


==Crystal structure of a glycosylase specific nanobody==
<StructureSection load='8ftt' size='340' side='right'caption='[[8ftt]], [[Resolution|resolution]] 2.08&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[8ftt]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8FTT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FTT 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]] 2.08&#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=8ftt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8ftt OCA], [https://pdbe.org/8ftt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8ftt RCSB], [https://www.ebi.ac.uk/pdbsum/8ftt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8ftt ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Nanobodies (VHHs) are single-domain antibodies with three antigenic CDR regions and are used in diverse scientific applications. Here, an approximately 14 kDa nanobody (A5) specific for the endonuclease VIII (Nei)-like 1 or NEIL1 DNA glycosylase involved in the first step of the base-excision repair pathway was crystallized and its structure was determined to 2.1 A resolution. The crystals posed challenges due to potential twinning and anisotropic diffraction. Despite inconclusive twinning indicators, reprocessing in an orthorhombic setting and molecular replacement in space group P2(1)2(1)2 enabled the successful modeling of 96% of residues in the asymmetric unit, with final R(work) and R(free) values of 0.199 and 0.229, respectively.

Deciphering the crystal structure of a novel nanobody against the NEIL1 DNA glycosylase.,Thompson MK, Sharma N, Thorn A, Prakash A Acta Crystallogr D Struct Biol. 2024 Feb 1;80(Pt 2):137-146. doi: , 10.1107/S205979832400038X. Epub 2024 Jan 30. PMID:38289715<ref>PMID:38289715</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 8ftt" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Prakash A]]
[[Category: Thompson MK]]