5vgu - Revision history

OCA at 13:48, 4 October 2023

OCA — Wed, 04 Oct 2023 13:48:36 GMT

←Older revision		Revision as of 13:48, 4 October 2023
Line 1:		Line 1:

	==Structure of Halothece sp. PCC 7418 CcmK4==		==Structure of Halothece sp. PCC 7418 CcmK4==
-	<StructureSection load='5vgu' size='340' side='right' caption='[[5vgu]], [[Resolution\|resolution]] 1.81Å' scene=''>	+	<StructureSection load='5vgu' size='340' side='right'caption='[[5vgu]], [[Resolution\|resolution]] 1.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vgu]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aphanothece_halophytica_'solar_lake' Aphanothece halophytica 'solar lake'~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VGU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vgu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Halothece_sp._PCC_7418 Halothece sp. PCC 7418]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VGU FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PCC7418_0347 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=65093 Aphanothece halophytica 'Solar Lake'])~~</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]] 1.8071933Å</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=5vgu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgu OCA], [~~http~~://pdbe.org/5vgu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vgu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vgu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgu 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=5vgu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgu OCA], [https://pdbe.org/5vgu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vgu RCSB], [https://www.ebi.ac.uk/pdbsum/5vgu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgu ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CCMK4_HALP7 CCMK4_HALP7] A probably essential, minor shell protein of the carboxysome, a polyhedral inclusion where RuBisCO (ribulose bisphosphate carboxylase, rbcL-rbcS) is sequestered. Hexamers form sheets that form the facets of the polyhedral carboxysome. In PCC 7418 there are several CcmK paralogs with presumably functional differences. This subunit can probably make both homohexamers and heterohexamers with CcmK3. Both hexamers can also make dodecamers, formation depends on buffer conditions.<ref>PMID:30389783</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aphanothece halophytica 'solar lake'~~]]	+	[[Category: Halothece sp. PCC 7418]]
-	[[Category: ~~Kerfeld, C A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Sommer, M~~]]	+	[[Category: Kerfeld CA]]
-	[[Category: ~~Sutter,~~ M]]	+	[[Category: Sommer M]]
-	[[Category: ~~Bacterial microcompartment]]~~	+	[[Category: Sutter M]]
-	~~[[Category: Structural protein~~]]	+

OCA at 09:21, 30 January 2019

OCA — Wed, 30 Jan 2019 09:21:38 GMT

←Older revision		Revision as of 09:21, 30 January 2019
Line 3:		Line 3:
	<StructureSection load='5vgu' size='340' side='right' caption='[[5vgu]], [[Resolution\|resolution]] 1.81Å' scene=''>		<StructureSection load='5vgu' size='340' side='right' caption='[[5vgu]], [[Resolution\|resolution]] 1.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vgu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vgu]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanothece_halophytica_'solar_lake' Aphanothece halophytica 'solar lake']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGU FirstGlance]. <br>
-	</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=5vgu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgu OCA], [http://pdbe.org/5vgu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgu RCSB], [http://www.ebi.ac.uk/pdbsum/5vgu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgu ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PCC7418_0347 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=65093 Aphanothece halophytica 'Solar Lake'])</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=5vgu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgu OCA], [http://pdbe.org/5vgu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgu RCSB], [http://www.ebi.ac.uk/pdbsum/5vgu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgu ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial microcompartments (BMCs) encapsulate enzymes within a selectively permeable, proteinaceous shell. Carboxysomes are BMCs containing ribulose-1,5-bisphosphate carboxylase oxygenase and carbonic anhydrase that enhance carbon dioxide fixation. The carboxysome shell consists of three structurally characterized protein types, each named after the oligomer they form: BMC-H (hexamer), BMC-P (pentamer), and BMC-T (trimer). These three protein types form cyclic homooligomers with pores at the center of symmetry that enable metabolite transport across the shell. Carboxysome shells contain multiple BMC-H paralogs, each with distinctly conserved residues surrounding the pore, which are assumed to be associated with specific metabolites. We studied the regulation of beta-carboxysome shell composition by investigating the BMC-H genes ccmK3 and ccmK4 situated in a locus remote from other carboxysome genes. We made single and double deletion mutants of ccmK3 and ccmK4 in Synechococcus elongatus PCC7942 and show that, unlike CcmK3, CcmK4 is necessary for optimal growth. In contrast to other CcmK proteins, CcmK3 does not form homohexamers; instead CcmK3 forms heterohexamers with CcmK4 with a 1:2 stoichiometry. The CcmK3-CcmK4 heterohexamers form stacked dodecamers in a pH-dependent manner. Our results indicate that CcmK3-CcmK4 heterohexamers potentially expand the range of permeability properties of metabolite channels in carboxysome shells. Moreover, the observed facultative formation of dodecamers in solution suggests that carboxysome shell permeability may be dynamically attenuated by "capping" facet-embedded hexamers with a second hexamer. Because beta-carboxysomes are obligately expressed, heterohexamer formation and capping could provide a rapid and reversible means to alter metabolite flux across the shell in response to environmental/growth conditions.
		+
		+	Heterohexamers Formed by CcmK3 and CcmK4 Increase the Complexity of Beta Carboxysome Shells.,Sommer M, Sutter M, Gupta S, Kirst H, Turmo A, Lechno-Yossef S, Burton RL, Saechao C, Sloan NB, Cheng X, Chan LG, Petzold CJ, Fuentes-Cabrera M, Ralston CY, Kerfeld CA Plant Physiol. 2019 Jan;179(1):156-167. doi: 10.1104/pp.18.01190. Epub 2018 Nov, 2. PMID:30389783<ref>PMID:30389783</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5vgu" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aphanothece halophytica 'solar lake']]
	[[Category: Kerfeld, C A]]		[[Category: Kerfeld, C A]]
	[[Category: Sommer, M]]		[[Category: Sommer, M]]

OCA at 13:45, 11 April 2018

OCA — Wed, 11 Apr 2018 13:45:59 GMT

←Older revision		Revision as of 13:45, 11 April 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5vgu is ~~ON HOLD until Paper Publication~~	+	==Structure of Halothece sp. PCC 7418 CcmK4==
-		+	<StructureSection load='5vgu' size='340' side='right' caption='[[5vgu]], [[Resolution\|resolution]] 1.81Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5vgu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGU FirstGlance]. <br>
-	~~Description~~:	+	</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=5vgu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgu OCA], [http://pdbe.org/5vgu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgu RCSB], [http://www.ebi.ac.uk/pdbsum/5vgu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgu ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kerfeld, C A]]
		+	[[Category: Sommer, M]]
		+	[[Category: Sutter, M]]
		+	[[Category: Bacterial microcompartment]]
		+	[[Category: Structural protein]]

OCA at 12:16, 27 April 2017

OCA — Thu, 27 Apr 2017 12:16:44 GMT

←Older revision		Revision as of 12:16, 27 April 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5vgu is ON HOLD	+	The entry 5vgu is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 19 Apr 2017 11:25:58 GMT

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

←Older revision

Revision as of 11:25, 19 April 2017

OCA: New page: '''Unreleased structure''' The entry 5vgu is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 19 Apr 2017 11:25:57 GMT

New page: '''Unreleased structure''' The entry 5vgu is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5vgu is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]