5w8g - Revision history

OCA at 14:14, 13 March 2024

2024-03-13T14:14:38Z

←Older revision		Revision as of 14:14, 13 March 2024
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	==The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with SAH==		==The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with SAH==
-	<StructureSection load='5w8g' size='340' side='right' caption='[[5w8g]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5w8g' size='340' side='right'caption='[[5w8g]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5w8g]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium~~ japonicum~~" kirchner 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W8G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5W8G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5w8g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W8G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5W8G FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=SAH:S~~-~~ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~AF336_03940 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=375 "Rhizobacterium japonicum" Kirchner 1896])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<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=5w8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w8g OCA], [~~http~~://pdbe.org/5w8g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5w8g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5w8g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5w8g 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=5w8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w8g OCA], [https://pdbe.org/5w8g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5w8g RCSB], [https://www.ebi.ac.uk/pdbsum/5w8g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5w8g ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	In several Proteobacteria, LuxI-type enzymes catalyze the biosynthesis of acyl-homoserine lactones (AHL) signals using S-adenosyl-l-methionine and either cellular acyl carrier protein (ACP)-coupled fatty acids or CoA-aryl/acyl moieties as progenitors. Little is known about the molecular mechanism of signal biosynthesis, the basis for substrate specificity, or the rationale for donor specificity for any LuxI member. Here, we present several cocrystal structures of BjaI, a CoA-dependent LuxI homolog that represent views of enzyme complexes that exist along the reaction coordinate of signal synthesis. Complementary biophysical, structure-function, and kinetic analysis define the features that facilitate the unusual acyl conjugation with S-adenosylmethionine (SAM). We also identify the determinant that establishes specificity for the acyl donor and identify residues that are critical for acyl/aryl specificity. These results highlight how a prevalent scaffold has evolved to catalyze quorum signal synthesis and provide a framework for the design of small-molecule antagonists of quorum signaling.
-
-	Molecular basis for the substrate specificity of quorum signal synthases.,Dong SH, Frane ND, Christensen QH, Greenberg EP, Nagarajan R, Nair SK Proc Natl Acad Sci U S A. 2017 Aug 22;114(34):9092-9097. doi:, 10.1073/pnas.1705400114. Epub 2017 Aug 7. PMID:28784791<ref>PMID:28784791</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5w8g" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhizobacterium~~ japonicum ~~kirchner 1896~~]]	+	[[Category: Bradyrhizobium japonicum]]
-	[[Category: ~~Dong, S H~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Nair,~~ S ~~K]]~~	+	[[Category: Dong S-H]]
-	~~[[Category: Acyl~~-~~homoserine lactone~~]]	+	[[Category: Nair SK]]
-	[[Category: ~~Biosynthetic protein]]~~	+
-	~~[[Category: Bjai]]~~	+
-	~~[[Category: Coenzyme some~~]]	+

OCA at 21:16, 15 November 2017

2017-11-15T21:16:40Z

←Older revision		Revision as of 21:16, 15 November 2017
Line 3:		Line 3:
	<StructureSection load='5w8g' size='340' side='right' caption='[[5w8g]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5w8g' size='340' side='right' caption='[[5w8g]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5w8g]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W8G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W8G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5w8g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W8G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W8G FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF336_03940 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</td></tr>
	<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=5w8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w8g OCA], [http://pdbe.org/5w8g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w8g RCSB], [http://www.ebi.ac.uk/pdbsum/5w8g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w8g ProSAT]</span></td></tr>		<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=5w8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w8g OCA], [http://pdbe.org/5w8g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w8g RCSB], [http://www.ebi.ac.uk/pdbsum/5w8g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w8g ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Rhizobacterium japonicum kirchner 1896]]
	[[Category: Dong, S H]]		[[Category: Dong, S H]]
	[[Category: Nair, S K]]		[[Category: Nair, S K]]

OCA: Protected "5w8g" [edit=sysop:move=sysop]

2017-08-24T11:13:35Z

Protected "5w8g" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:13, 24 August 2017

OCA: New page: ==The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with SAH== == Structural highlights ==
<table><tr><td colspan='2'>[[5w8g]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W8G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W8G FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<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=5w8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w8g OCA], [http://pdbe.org/5w8g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w8g RCSB], [http://www.ebi.ac.uk/pdbsum/5w8g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w8g ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In several Proteobacteria, LuxI-type enzymes catalyze the biosynthesis of acyl-homoserine lactones (AHL) signals using S-adenosyl-l-methionine and either cellular acyl carrier protein (ACP)-coupled fatty acids or CoA-aryl/acyl moieties as progenitors. Little is known about the molecular mechanism of signal biosynthesis, the basis for substrate specificity, or the rationale for donor specificity for any LuxI member. Here, we present several cocrystal structures of BjaI, a CoA-dependent LuxI homolog that represent views of enzyme complexes that exist along the reaction coordinate of signal synthesis. Complementary biophysical, structure-function, and kinetic analysis define the features that facilitate the unusual acyl conjugation with S-adenosylmethionine (SAM). We also identify the determinant that establishes specificity for the acyl donor and identify residues that are critical for acyl/aryl specificity. These results highlight how a prevalent scaffold has evolved to catalyze quorum signal synthesis and provide a framework for the design of small-molecule antagonists of quorum signaling.

Molecular basis for the substrate specificity of quorum signal synthases.,Dong SH, Frane ND, Christensen QH, Greenberg EP, Nagarajan R, Nair SK Proc Natl Acad Sci U S A. 2017 Aug 22;114(34):9092-9097. doi:, 10.1073/pnas.1705400114. Epub 2017 Aug 7. PMID:28784791<ref>PMID:28784791</ref>

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5w8g" style="background-color:#fffaf0;"></div>
== References ==
<references/>
TOC
</StructureSection>
[[Category: Dong, S H]]
[[Category: Nair, S K]]
[[Category: Acyl-homoserine lactone]]
[[Category: Biosynthetic protein]]
[[Category: Bjai]]
[[Category: Coenzyme some]]