8peu: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 8peu is ~~ON HOLD until Paper~~ Publication

==Rho-ATPgS-Psu complex III==

== Structural highlights ==

<table><tr><td colspan='2'>[[8peu]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacteria_phage_P4 Enterobacteria phage P4] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8PEU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8PEU 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]] 3.7Å</td></tr>

<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8peu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8peu OCA], [https://pdbe.org/8peu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8peu RCSB], [https://www.ebi.ac.uk/pdbsum/8peu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8peu ProSAT]</span></td></tr>

</table>

== Function ==

[https://www.uniprot.org/uniprot/RHO_ECOLI RHO_ECOLI] Facilitates transcription termination by a mechanism that involves rho binding to the nascent RNA, activation of rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template. RNA-dependent NTPAse which utilizes all four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_01884]

== Publication Abstract from PubMed ==

Many bacteriophages modulate host transcription to favor expression of their own genomes. Phage satellite P4 polarity suppression protein, Psu, a building block of the viral capsid, inhibits hexameric transcription termination factor, rho, by presently unknown mechanisms. Our cryogenic electron microscopy structures of rho-Psu complexes show that Psu dimers clamp two inactive, open rho rings and promote their expansion to higher-oligomeric states. ATPase, nucleotide binding and nucleic acid binding studies revealed that Psu hinders rho ring closure and traps nucleotides in their binding pockets on rho. Structure-guided mutagenesis in combination with growth, pull-down, and termination assays further delineated the functional rho-Psu interfaces in vivo. Bioinformatic analyses revealed that Psu is associated with a wide variety of phage defense systems across Enterobacteriaceae, suggesting that Psu may regulate expression of anti-phage genes. Our findings show that modulation of the rho oligomeric state via diverse strategies is a pervasive gene regulatory principle in bacteria.

~~Authors:~~ Gjorgjevikj, D., ~~Wahl~~, ~~M.C.~~, Hilal, T., Loll, B.

The Psu protein of phage satellite P4 inhibits transcription termination factor rho by forced hyper-oligomerization.,Gjorgjevikj D, Kumar N, Wang B, Hilal T, Said N, Loll B, Artsimovitch I, Sen R, Wahl MC Nat Commun. 2025 Jan 9;16(1):550. doi: 10.1038/s41467-025-55897-9. PMID:39788982<ref>PMID:39788982</ref>

~~Description: Rho~~-~~ATPgS~~-~~Psu complex I~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased Structures~~]]

</div>

[[Category: ~~Loll, B~~]]

[[Category: Gjorgjevikj, D]]

== References ==

[[Category: ~~Wahl, M.C~~]]

[[Category: ~~Hilal, T~~]]

__TOC__

</StructureSection>

[[Category: Enterobacteria phage P4]]

[[Category: Escherichia coli]]

[[Category: Large Structures]]

[[Category: Gjorgjevikj D]]

[[Category: Hilal T]]

[[Category: Loll B]]

[[Category: Wahl MC]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 8peu is ON HOLD  until Paper Publication
+==Rho-ATPgS-Psu complex III==
+<StructureSection load='8peu' size='340' side='right'caption='[[8peu]], [[Resolution|resolution]] 3.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[8peu]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacteria_phage_P4 Enterobacteria phage P4] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8PEU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8PEU 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]] 3.7&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8peu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8peu OCA], [https://pdbe.org/8peu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8peu RCSB], [https://www.ebi.ac.uk/pdbsum/8peu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8peu ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RHO_ECOLI RHO_ECOLI] Facilitates transcription termination by a mechanism that involves rho binding to the nascent RNA, activation of rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template. RNA-dependent NTPAse which utilizes all four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_01884]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Many bacteriophages modulate host transcription to favor expression of their own genomes. Phage satellite P4 polarity suppression protein, Psu, a building block of the viral capsid, inhibits hexameric transcription termination factor, rho, by presently unknown mechanisms. Our cryogenic electron microscopy structures of rho-Psu complexes show that Psu dimers clamp two inactive, open rho rings and promote their expansion to higher-oligomeric states. ATPase, nucleotide binding and nucleic acid binding studies revealed that Psu hinders rho ring closure and traps nucleotides in their binding pockets on rho. Structure-guided mutagenesis in combination with growth, pull-down, and termination assays further delineated the functional rho-Psu interfaces in vivo. Bioinformatic analyses revealed that Psu is associated with a wide variety of phage defense systems across Enterobacteriaceae, suggesting that Psu may regulate expression of anti-phage genes. Our findings show that modulation of the rho oligomeric state via diverse strategies is a pervasive gene regulatory principle in bacteria.
-Authors: Gjorgjevikj, D., Wahl, M.C., Hilal, T., Loll, B.
+The Psu protein of phage satellite P4 inhibits transcription termination factor rho by forced hyper-oligomerization.,Gjorgjevikj D, Kumar N, Wang B, Hilal T, Said N, Loll B, Artsimovitch I, Sen R, Wahl MC Nat Commun. 2025 Jan 9;16(1):550. doi: 10.1038/s41467-025-55897-9. PMID:39788982<ref>PMID:39788982</ref>
-Description: Rho-ATPgS-Psu complex I
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Loll, B]]
+<div class="pdbe-citations 8peu" style="background-color:#fffaf0;"></div>
-[[Category: Gjorgjevikj, D]]
+== References ==
-[[Category: Wahl, M.C]]
+<references/>
-[[Category: Hilal, T]]
+__TOC__
+</StructureSection>
+[[Category: Enterobacteria phage P4]]
+[[Category: Escherichia coli]]
+[[Category: Large Structures]]
+[[Category: Gjorgjevikj D]]
+[[Category: Hilal T]]
+[[Category: Loll B]]
+[[Category: Wahl MC]]