6jw4: Difference between revisions
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<StructureSection load='6jw4' size='340' side='right'caption='[[6jw4]], [[Resolution|resolution]] 3.09Å' scene=''> | <StructureSection load='6jw4' size='340' side='right'caption='[[6jw4]], [[Resolution|resolution]] 3.09Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[6jw4]] is a 12 chain structure with sequence from [ | <table><tr><td colspan='2'>[[6jw4]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Xanthomonas_campestris_pv._armoraciae Xanthomonas campestris pv. armoraciae] 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=6JW4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JW4 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.09Å</td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5HC:2-DEOXY-5-(HYDROXYMETHYL)CYTIDINE+5-(DIHYDROGEN+PHOSPHATE)'>5HC</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=6jw4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jw4 OCA], [https://pdbe.org/6jw4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jw4 RCSB], [https://www.ebi.ac.uk/pdbsum/6jw4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jw4 ProSAT]</span></td></tr> | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q3ZD72_XANCA Q3ZD72_XANCA] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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</div> | </div> | ||
<div class="pdbe-citations 6jw4" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 6jw4" style="background-color:#fffaf0;"></div> | ||
==See Also== | |||
*[[TAL effector|TAL effector]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: Synthetic construct]] | ||
[[Category: | [[Category: Xanthomonas campestris pv. armoraciae]] | ||
[[Category: | [[Category: Liu L]] | ||
[[Category: | [[Category: Yi C]] | ||
Latest revision as of 13:20, 22 November 2023
Degenerate RVD RG forms a distinct loop conformationDegenerate RVD RG forms a distinct loop conformation
Structural highlights
FunctionPublication Abstract from PubMedTranscription activator-like effectors (TALEs) recognize DNA through repeat-variable diresidues (RVDs), and TALE-DNA interactions are sensitive to DNA modifications. Our previous study deciphered the recognition of 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) by TALEs. Here, we report seven crystal structures of TALE-DNA complexes. The 5mC-specific RVD HA recognizes 5mC through van der Waals interactions and exhibits highly similar loop conformation to natural RVDs. The degenerate RVD RG contacts 5mC and 5hmC via van der Waals interactions as well; however, its loop conformation differs significantly. The loop conformations of universal RVD R* and 5hmC-specific RVD Q* are similar to that of RG, while the interactions of R* with C/5mC/5hmC and Q* with 5hmC are mediated by waters. Together, our findings illustrate the molecular basis for the specific recognition of 5mC and 5hmC by multiple noncanonical TALEs and provide insights into the plasticity of the TALE RVD loops. Structural Insights into the Specific Recognition of 5-methylcytosine and 5-hydroxymethylcytosine by TAL Effectors.,Liu L, Zhang Y, Liu M, Wei W, Yi C, Peng J J Mol Biol. 2020 Feb 14;432(4):1035-1047. doi: 10.1016/j.jmb.2019.11.023. Epub, 2019 Dec 19. PMID:31863750[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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