4xj6

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==Crystal structure of Escherichia coli DncV 3'-deoxy GTP bound form==
==Crystal structure of Escherichia coli DncV 3'-deoxy GTP bound form==
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<StructureSection load='4xj6' size='340' side='right' caption='[[4xj6]], [[Resolution|resolution]] 2.31&Aring;' scene=''>
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<StructureSection load='4xj6' size='340' side='right'caption='[[4xj6]], [[Resolution|resolution]] 2.31&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4xj6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XJ6 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4xj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XJ6 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GH3:3-DEOXY-GUANOSINE-5-TRIPHOSPHATE'>GH3</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.31&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4xj1|4xj1]], [[4xj3|4xj3]], [[4xj4|4xj4]], [[4xj5|4xj5]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GH3:3-DEOXY-GUANOSINE-5-TRIPHOSPHATE'>GH3</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4xj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xj6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4xj6 RCSB], [http://www.ebi.ac.uk/pdbsum/4xj6 PDBsum]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4xj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xj6 OCA], [https://pdbe.org/4xj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xj6 RCSB], [https://www.ebi.ac.uk/pdbsum/4xj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xj6 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/DNCV1_ECOLX DNCV1_ECOLX] CBASS (cyclic oligonucleotide-based antiphage signaling system) provides immunity against bacteriophage. The CD-NTase protein synthesizes cyclic nucleotides in response to infection; these serve as specific second messenger signals. The signals activate a diverse range of effectors, leading to bacterial cell death and thus abortive phage infection. A type II-C(GA) CBASS system (PubMed:32839535).<ref>PMID:32839535</ref> Catalyzes the synthesis of 3'3'-cyclic GMP-AMP (3'3'-cGAMP) from GTP and ATP, a second messenger in cell signal transduction. Is also able to produce c-di-AMP and c-di-GMP from ATP and GTP, respectively; however, 3'3'-cGAMP is the dominant molecule produced by DncV in vivo, contrary to the 2'3'-cGAMP produced by eukaryotes. By producing cGAMP, down-regulates csgD expression and expression of flagellum regulon genes, which leads to the down-regulation of rdar biofilm formation and flagellum-mediated swimming and swarming motility in a temperature-dependent manner (PubMed:30837338). Controls the activity of cGAMP-activated phospholipase CapV, a patatin-like lipase that is a direct 3',3'-cGAMP receptor encoded in the dncV operon (By similarity).[UniProtKB:Q9KVG7]<ref>PMID:30837338</ref>
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Cyclic dinucleotides (CDNs) play key roles as second messengers and signaling molecules in bacteria and metazoans. The newly identified dinucleotide cyclase in Vibrio cholerae (DncV) produces three different CDNs containing two 3'-5' phosphodiester bonds, and its predominant product is cyclic GMP-AMP, whereas mammalian cyclic GMP-AMP synthase (cGAS) produces only cyclic GMP-AMP containing mixed 2'-5' phosphodiester bonds. We report the crystal structures of V. cholerae and Escherichia coli DncV in complex with various nucleotides in the pre-reaction states. The high-resolution structures revealed that DncV preferably recognizes ATP and GTP as acceptor and donor nucleotides, respectively, in the first nucleotidyl transfer reaction. Considering the recently reported intermediate structures, our pre-reaction state structures provide the precise mechanism of 3'-5' linked cyclic AMP-GMP production in bacteria. A comparison with cGAS in the pre-reaction states suggests that the orientation of the acceptor nucleotide primarily determines the distinct linkage specificities between DncV and cGAS.
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Structural Basis for the Catalytic Mechanism of DncV, Bacterial Homolog of Cyclic GMP-AMP Synthase.,Kato K, Ishii R, Hirano S, Ishitani R, Nureki O Structure. 2015 Apr 1. pii: S0969-2126(15)00078-7. doi:, 10.1016/j.str.2015.01.023. PMID:25865248<ref>PMID:25865248</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Ishii, R]]
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[[Category: Escherichia coli]]
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[[Category: Ishitani, R]]
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[[Category: Large Structures]]
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[[Category: Kato, K]]
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[[Category: Ishii R]]
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[[Category: Nureki, O]]
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[[Category: Ishitani R]]
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[[Category: Bacterial virulence]]
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[[Category: Kato K]]
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[[Category: Cyclic gmp-amp synthase]]
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[[Category: Nureki O]]
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[[Category: Nucleotidyltransferase]]
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Current revision

Crystal structure of Escherichia coli DncV 3'-deoxy GTP bound form

PDB ID 4xj6

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