9w3d: Difference between revisions

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'''Unreleased structure'''


The entry 9w3d is ON HOLD  until Paper Publication
==Cryo-EM structure of E. coli RNA polymerase in complex with EP1==
<StructureSection load='9w3d' size='340' side='right'caption='[[9w3d]], [[Resolution|resolution]] 4.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[9w3d]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_phage_phiSUSP1 Escherichia phage phiSUSP1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9W3D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9W3D FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 4&#8491;</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=9w3d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9w3d OCA], [https://pdbe.org/9w3d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9w3d RCSB], [https://www.ebi.ac.uk/pdbsum/9w3d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9w3d ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Many phages encode proteins that specifically inhibit host RNA polymerase activity, thereby sabotaging and, in some cases, hijacking the host transcription machinery to serve their needs. Traditional methods for identifying new phage proteins that inhibit bacterial transcription are labor intensive and require access to live phages. To overcome these limitations, we develop a highly efficient pipeline for AlphaFold 3-guided discovery of phage proteins that inhibit bacterial transcription initiation. Using this pipeline, three phage proteins are identified and characterized. Structural and biochemical analyses demonstrate that these phage proteins bind to distinct sites on RNA polymerase and inhibit transcription initiation via different mechanisms. This study showcases the power of AlphaFold 3 in discovering novel binders of large protein complexes, and the pipeline developed here could be readily adapted to screen modulators of other large targets, such as the ribosome, proteasome, and CRISPR-Cas systems.


Authors:  
AlphaFold 3-powered discovery of phage proteins that inhibit bacterial transcription initiation.,Yuan L, Liu Q, Xiao X, Xu L, Liang L, Guo Y, Yao Y, Wang H, Feng Y, Hua X, Feng Y Cell Rep. 2026 Mar 24;45(3):117082. doi: 10.1016/j.celrep.2026.117082. Epub 2026 , Mar 12. PMID:41824451<ref>PMID:41824451</ref>


Description:  
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
<div class="pdbe-citations 9w3d" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia phage phiSUSP1]]
[[Category: Large Structures]]
[[Category: Feng Y]]
[[Category: Yuan L]]
Retrieved from "https://proteopedia.org/9w3d"