2lex: Difference between revisions
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==Complex of the C-terminal WRKY domain of AtWRKY4 and a W-box DNA== | ==Complex of the C-terminal WRKY domain of AtWRKY4 and a W-box DNA== | ||
<StructureSection load='2lex' size='340' side='right'caption='[[2lex | <StructureSection load='2lex' size='340' side='right'caption='[[2lex]]' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2lex]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[2lex]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LEX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LEX FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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'>[https://proteopedia.org/fgij/fg.htm?mol=2lex FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lex OCA], [https://pdbe.org/2lex PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lex RCSB], [https://www.ebi.ac.uk/pdbsum/2lex PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lex 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=2lex FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lex OCA], [https://pdbe.org/2lex PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lex RCSB], [https://www.ebi.ac.uk/pdbsum/2lex PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lex ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[https://www.uniprot.org/uniprot/WRKY4_ARATH WRKY4_ARATH] Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (By similarity). | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Arabidopsis thaliana]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Inoue | [[Category: Inoue M]] | ||
[[Category: Kigawa | [[Category: Kigawa T]] | ||
[[Category: Watanabe S]] | |||
[[Category: Watanabe | [[Category: Yamasaki K]] | ||
[[Category: Yamasaki | [[Category: Yokoyama S]] | ||
[[Category: Yokoyama | |||
Revision as of 13:55, 15 February 2023
Complex of the C-terminal WRKY domain of AtWRKY4 and a W-box DNAComplex of the C-terminal WRKY domain of AtWRKY4 and a W-box DNA
Structural highlights
FunctionWRKY4_ARATH Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (By similarity). Publication Abstract from PubMedThe WRKY family transcription factors regulate plant-specific reactions that are mostly related to biotic and abiotic stresses. They share the WRKY domain that recognizes a DNA element (TTCAC[C/T]), termed W-box, in target genes. Here we determined the solution structure of the C-terminal WRKY domain of Arabidopsis WRKY4 in complex with the W-box DNA by NMR. A four-stranded beta-sheet enters the major groove of DNA in an atypical mode termed the beta-wedge, where the sheet is nearly perpendicular to the DNA helical axis. Residues in the conserved WRKYGQK motif contact with DNA bases mainly through extensive apolar contacts with thymine methyl groups. The importance of these contacts was verified by substituting the relevant T bases with U and by surface plasmon resonance (SPR) analyses of DNA binding. Structural basis for sequence-specific DNA recognition by an Arabidopsis WRKY transcription factor.,Yamasaki K, Kigawa T, Watanabe S, Inoue M, Yamasaki T, Seki M, Shinozaki K, Yokoyama S J Biol Chem. 2012 Jan 4. PMID:22219184[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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