8wy4
From Proteopedia
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(New page: '''Unreleased structure''' The entry 8wy4 is ON HOLD Authors: Description: Category: Unreleased Structures) |
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| - | '''Unreleased structure''' | ||
| - | + | ==GajA tetramer with ATP== | |
| + | <StructureSection load='8wy4' size='340' side='right'caption='[[8wy4]], [[Resolution|resolution]] 2.81Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[8wy4]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus_VD045 Bacillus cereus VD045]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8WY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8WY4 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]] 2.81Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</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=8wy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8wy4 OCA], [https://pdbe.org/8wy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8wy4 RCSB], [https://www.ebi.ac.uk/pdbsum/8wy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8wy4 ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/GAJA_BACC6 GAJA_BACC6] Component of antiviral defense system Gabija type I, composed of GajA and GajB (PubMed:29371424). Endonuclease that nicks double-stranded DNA within the sequence 5'-TNNNCGGGNNA-3' in the absence of nucleotides (NTP, dNTP and NDPs), cleaving after C-1 (PubMed:33885789, PubMed:37992757). Has no detected ATPase activity (PubMed:33885789). Expression of Gabija type I in B.subtilis (strain BEST7003) confers resistance to phages phi105, phi29, rho14, SpBeta and SBSphiC (PubMed:29371424). Expression of Gabija type I in E.coli B (strain ATCC 11303) confers resistance to phage T7 (PubMed:33885789). It is thought that this enzyme is strongly suppressed during physiological growth (in E.coli total nucleotide concentration is over 8.7 mM in mid-log phase), but during viral replication, when nucleotides are rapidly consumed, it is de-suppressed and degrades target DNA (Probable).<ref>PMID:29371424</ref> <ref>PMID:33885789</ref> <ref>PMID:37992757</ref> <ref>PMID:33885789</ref> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Prokaryotes have evolved intricate innate immune systems against phage infection(1-7). Gabija is a highly widespread prokaryotic defence system that consists of two components, GajA and GajB(8). GajA functions as a DNA endonuclease that is inactive in the presence of ATP(9). Here, to explore how the Gabija system is activated for anti-phage defence, we report its cryo-electron microscopy structures in five states, including apo GajA, GajA in complex with DNA, GajA bound by ATP, apo GajA-GajB, and GajA-GajB in complex with ATP and Mg(2+). GajA is a rhombus-shaped tetramer with its ATPase domain clustered at the centre and the topoisomerase-primase (Toprim) domain located peripherally. ATP binding at the ATPase domain stabilizes the insertion region within the ATPase domain, keeping the Toprim domain in a closed state. Upon ATP depletion by phages, the Toprim domain opens to bind and cleave the DNA substrate. GajB, which docks on GajA, is activated by the cleaved DNA, ultimately leading to prokaryotic cell death. Our study presents a mechanistic landscape of Gabija activation. | ||
| - | + | Structures and activation mechanism of the Gabija anti-phage system.,Li J, Cheng R, Wang Z, Yuan W, Xiao J, Zhao X, Du X, Xia S, Wang L, Zhu B, Wang L Nature. 2024 May;629(8011):467-473. doi: 10.1038/s41586-024-07270-x. Epub 2024 , Mar 12. PMID:38471529<ref>PMID:38471529</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| + | <div class="pdbe-citations 8wy4" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Bacillus cereus VD045]] | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Li J]] | ||
| + | [[Category: Wang L]] | ||
| + | [[Category: Wang Z]] | ||
Current revision
GajA tetramer with ATP
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