6x8m - Revision history

OCA at 14:48, 6 March 2024

OCA — Wed, 06 Mar 2024 14:48:52 GMT

←Older revision		Revision as of 14:48, 6 March 2024
Line 3:		Line 3:
	<StructureSection load='6x8m' size='340' side='right'caption='[[6x8m]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6x8m' size='340' side='right'caption='[[6x8m]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6x8m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Anacystis_nidulans_r2 Anacystis nidulans r2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X8M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6X8M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6x8m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechococcus_elongatus_PCC_7942_=_FACHB-805 Synechococcus elongatus PCC 7942 = FACHB-805]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X8M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6X8M FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~srpI~~, ~~Synpcc7942_B2662, pANL38 (~~[~~https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1140 Anacystis nidulans R2])~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 2.2Å</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=6x8m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x8m OCA], [https://pdbe.org/6x8m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x8m RCSB], [https://www.ebi.ac.uk/pdbsum/6x8m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x8m 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=6x8m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x8m OCA], [https://pdbe.org/6x8m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x8m RCSB], [https://www.ebi.ac.uk/pdbsum/6x8m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x8m ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/ENCP2_SYNE7 ENCP2_SYNE7] Shell component of a type 2A encapsulin nanocompartment. Expression in E.coli generates nanocompartments with an average diameter of 25 nm. They can be disassembled by treatment with 6M guanidine hydrochloride and reassembled with cargo. The nanocompartment is probably involved in sulfur metabolism (PubMed:33821786). Probably allows passage of cysteine into its interior; during growth in light the physiological pH is 8-8.4, about 30-54% of free cysteine (charge -1) would be able to pass through the shell (Probable).<ref>PMID:33821786</ref> <ref>PMID:33821786</ref>
-	~~Prokaryotic nanocompartments, also known as encapsulins, are a recently discovered proteinaceous organelle-like compartments in prokaryotes that compartmentalize cargo enzymes~~. ~~While initial studies have begun to elucidate the structure and physiological roles~~ of ~~encapsulins, bioinformatic evidence suggests that~~ a ~~great diversity of~~ encapsulin ~~nanocompartments remains unexplored~~. ~~Here, we describe a novel encapsulin~~ in ~~the freshwater cyanobacterium Synechococcus elongatus PCC 7942~~. ~~This nanocompartment is upregulated upon sulfate starvation and encapsulates a cysteine desulfurase enzyme via~~ an ~~N-terminal targeting sequence~~. ~~Using cryo-electron microscopy, we have determined the structure of the~~ nanocompartment ~~complex to 2~~.~~2 A resolution. Lastly, biochemical characterization~~ of the ~~complex demonstrated that the activity of the cysteine desulfurase~~ is ~~enhanced upon encapsulation~~. ~~Taken together~~, ~~our discovery, structural analysis, and enzymatic characterization~~ of ~~this prokaryotic nanocompartment provide a foundation for future studies seeking~~ to ~~understand~~ the ~~physiological role of this encapsulin in various bacteria~~.	+
-		+
-	Discovery and characterization of a novel family of prokaryotic nanocompartments involved in sulfur metabolism.,Nichols RJ, LaFrance B, Phillips NR, Radford DR, Oltrogge LM, Valentin-Alvarado LE, Bischoff AJ, Nogales E, Savage DF Elife. 2021 Apr 6;10. pii: 59288. doi: 10.7554/eLife.59288. PMID:33821786<ref>PMID:33821786</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.~~<br>	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6x8m" style="background-color~~:~~#fffaf0;">~~</~~div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Anacystis nidulans r2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bischoff~~, A J~~]]	+	[[Category: Synechococcus elongatus PCC 7942 = FACHB-805]]
-	[[Category: LaFrance~~, B J~~]]	+	[[Category: Bischoff AJ]]
-	[[Category: Nichols~~, R J~~]]	+	[[Category: LaFrance BJ]]
-	[[Category: Nogales, E]]	+	[[Category: Nichols RJ]]
-	[[Category: Oltrogge~~, L M~~]]	+	[[Category: Nogales E]]
-	[[Category: Phillips~~, N R~~]]	+	[[Category: Oltrogge LM]]
-	[[Category: Savage~~, D F~~]]	+	[[Category: Phillips NR]]
-	[[Category: Valentin-Alvarado~~, L E]]~~	+	[[Category: Savage DF]]
-	~~[[Category: Cysteine desulfurase]]~~	+	[[Category: Valentin-Alvarado LE]]
-	~~[[Category: Encapsulin]]~~	+
-	~~[[Category: Hk97-fold]]~~	+
-	~~[[Category: Nanocompartment]]~~	+
-	~~[[Category: Virus like particle~~]]	+

OCA at 08:28, 21 April 2021

OCA — Wed, 21 Apr 2021 08:28:54 GMT

←Older revision		Revision as of 08:28, 21 April 2021
Line 1:		Line 1:

	==CryoEM structure of the holo-SrpI encapsulin complex from Synechococcus elongatus PCC 7942==		==CryoEM structure of the holo-SrpI encapsulin complex from Synechococcus elongatus PCC 7942==
-	<StructureSection load='6x8m' size='340' side='right'caption='[[6x8m]]' scene=''>	+	<StructureSection load='6x8m' size='340' side='right'caption='[[6x8m]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X8M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6X8M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6x8m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Anacystis_nidulans_r2 Anacystis nidulans r2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X8M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6X8M FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6x8m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x8m OCA], [~~http~~://pdbe.org/6x8m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6x8m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6x8m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6x8m ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">srpI, Synpcc7942_B2662, pANL38 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</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=6x8m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x8m OCA], [https://pdbe.org/6x8m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x8m RCSB], [https://www.ebi.ac.uk/pdbsum/6x8m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x8m ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Prokaryotic nanocompartments, also known as encapsulins, are a recently discovered proteinaceous organelle-like compartments in prokaryotes that compartmentalize cargo enzymes. While initial studies have begun to elucidate the structure and physiological roles of encapsulins, bioinformatic evidence suggests that a great diversity of encapsulin nanocompartments remains unexplored. Here, we describe a novel encapsulin in the freshwater cyanobacterium Synechococcus elongatus PCC 7942. This nanocompartment is upregulated upon sulfate starvation and encapsulates a cysteine desulfurase enzyme via an N-terminal targeting sequence. Using cryo-electron microscopy, we have determined the structure of the nanocompartment complex to 2.2 A resolution. Lastly, biochemical characterization of the complex demonstrated that the activity of the cysteine desulfurase is enhanced upon encapsulation. Taken together, our discovery, structural analysis, and enzymatic characterization of this prokaryotic nanocompartment provide a foundation for future studies seeking to understand the physiological role of this encapsulin in various bacteria.
		+
		+	Discovery and characterization of a novel family of prokaryotic nanocompartments involved in sulfur metabolism.,Nichols RJ, LaFrance B, Phillips NR, Radford DR, Oltrogge LM, Valentin-Alvarado LE, Bischoff AJ, Nogales E, Savage DF Elife. 2021 Apr 6;10. pii: 59288. doi: 10.7554/eLife.59288. PMID:33821786<ref>PMID:33821786</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6x8m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Anacystis nidulans r2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bischoff AJ]]	+	[[Category: Bischoff, A J]]
-	[[Category: LaFrance BJ]]	+	[[Category: LaFrance, B J]]
-	[[Category: Nichols RJ]]	+	[[Category: Nichols, R J]]
-	[[Category: Nogales E]]	+	[[Category: Nogales, E]]
-	[[Category: Oltrogge LM]]	+	[[Category: Oltrogge, L M]]
-	[[Category: Phillips NR]]	+	[[Category: Phillips, N R]]
-	[[Category: Savage DF]]	+	[[Category: Savage, D F]]
-	[[Category: Valentin-Alvarado LE]]	+	[[Category: Valentin-Alvarado, L E]]
		+	[[Category: Cysteine desulfurase]]
		+	[[Category: Encapsulin]]
		+	[[Category: Hk97-fold]]
		+	[[Category: Nanocompartment]]
		+	[[Category: Virus like particle]]

OCA: Protected "6x8m" [edit=sysop:move=sysop]

OCA — Wed, 10 Jun 2020 06:29:25 GMT

Protected "6x8m" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:29, 10 June 2020

OCA: New page: ==CryoEM structure of the holo-SrpI encapsulin complex from Synechococcus elongatus PCC 7942== == Structu...

OCA — Wed, 10 Jun 2020 06:29:24 GMT

New page: ==CryoEM structure of the holo-SrpI encapsulin complex from Synechococcus elongatus PCC 7942== <StructureSection load='6x8m' size='340' side='right'caption='6x8m' scene=''> == Structu...

New page

==CryoEM structure of the holo-SrpI encapsulin complex from Synechococcus elongatus PCC 7942==
<StructureSection load='6x8m' size='340' side='right'caption='[[6x8m]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X8M OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6X8M FirstGlance]. <br>
</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6x8m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x8m OCA], [http://pdbe.org/6x8m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6x8m RCSB], [http://www.ebi.ac.uk/pdbsum/6x8m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6x8m ProSAT]</span></td></tr>
</table>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Bischoff AJ]]
[[Category: LaFrance BJ]]
[[Category: Nichols RJ]]
[[Category: Nogales E]]
[[Category: Oltrogge LM]]
[[Category: Phillips NR]]
[[Category: Savage DF]]
[[Category: Valentin-Alvarado LE]]