6hbc - Revision history

OCA at 01:17, 11 April 2020

OCA — Sat, 11 Apr 2020 01:17:33 GMT

←Older revision		Revision as of 01:17, 11 April 2020
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	<SX load='6hbc' size='340' side='right' viewer='molstar' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>		<SX load='6hbc' size='340' side='right' viewer='molstar' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure with sequence from [http://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=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6HBC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure with sequence from [http://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=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6HBC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6hbb\|6hbb]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6hbb\|6hbb]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ccmM, Synpcc7942_1423 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), cbbL, rbcL, Synpcc7942_1426 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), Synpcc7942_1427 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ccmM, Synpcc7942_1423 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), cbbL, rbcL, Synpcc7942_1426 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), Synpcc7942_1427 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribulose-bisphosphate_carboxylase Ribulose-bisphosphate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.39 4.1.1.39] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribulose-bisphosphate_carboxylase Ribulose-bisphosphate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.39 4.1.1.39] </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=6hbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbc OCA], [http://pdbe.org/6hbc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbc RCSB], [http://www.ebi.ac.uk/pdbsum/6hbc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbc ProSAT]</span></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=6hbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbc OCA], [http://pdbe.org/6hbc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbc RCSB], [http://www.ebi.ac.uk/pdbsum/6hbc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 21:38, 6 March 2020

OCA — Fri, 06 Mar 2020 21:38:17 GMT

←Older revision		Revision as of 21:38, 6 March 2020
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	==Structure of the repeat unit in the network formed by CcmM and Rubisco from Synechococcus elongatus==		==Structure of the repeat unit in the network formed by CcmM and Rubisco from Synechococcus elongatus==
-	<~~StructureSection~~ load='6hbc' size='340' side='right' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>	+	<SX load='6hbc' size='340' side='right' viewer='molstar' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure with sequence from [http://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=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBC FirstGlance]. <br>		<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure with sequence from [http://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=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBC FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 6hbc" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6hbc" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[RuBisCO 3D structures\|RuBisCO 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Anacystis nidulans r2]]		[[Category: Anacystis nidulans r2]]
		+	[[Category: Large Structures]]
	[[Category: Ribulose-bisphosphate carboxylase]]		[[Category: Ribulose-bisphosphate carboxylase]]
	[[Category: Aigner, H]]		[[Category: Aigner, H]]

OCA at 08:45, 21 February 2019

OCA — Thu, 21 Feb 2019 08:45:20 GMT

←Older revision		Revision as of 08:45, 21 February 2019
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	<StructureSection load='6hbc' size='340' side='right' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>		<StructureSection load='6hbc' size='340' side='right' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure with sequence from [http://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=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6hbb\|6hbb]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6hbb\|6hbb]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ccmM, Synpcc7942_1423 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), cbbL, rbcL, Synpcc7942_1426 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2]), Synpcc7942_1427 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1140 Anacystis nidulans R2])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribulose-bisphosphate_carboxylase Ribulose-bisphosphate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.39 4.1.1.39] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribulose-bisphosphate_carboxylase Ribulose-bisphosphate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.39 4.1.1.39] </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=6hbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbc OCA], [http://pdbe.org/6hbc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbc RCSB], [http://www.ebi.ac.uk/pdbsum/6hbc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbc 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=6hbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbc OCA], [http://pdbe.org/6hbc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbc RCSB], [http://www.ebi.ac.uk/pdbsum/6hbc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbc ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/CCMM_SYNE7 CCMM_SYNE7]] The presence of two potential DNA-binding regions suggests this protein may be a transcriptional regulator. [[http://www.uniprot.org/uniprot/RBL_SYNE7 RBL_SYNE7]] RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.		[[http://www.uniprot.org/uniprot/CCMM_SYNE7 CCMM_SYNE7]] The presence of two potential DNA-binding regions suggests this protein may be a transcriptional regulator. [[http://www.uniprot.org/uniprot/RBL_SYNE7 RBL_SYNE7]] RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cells use compartmentalization of enzymes as a strategy to regulate metabolic pathways and increase their efficiency(1). The alpha- and beta-carboxysomes of cyanobacteria contain ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco)-a complex of eight large (RbcL) and eight small (RbcS) subunits-and carbonic anhydrase(2-4). As HCO3(-) can diffuse through the proteinaceous carboxysome shell but CO2 cannot(5), carbonic anhydrase generates high concentrations of CO2 for carbon fixation by Rubisco(6). The shell also prevents access to reducing agents, generating an oxidizing environment(7-9). The formation of beta-carboxysomes involves the aggregation of Rubisco by the protein CcmM(10), which exists in two forms: full-length CcmM (M58 in Synechococcus elongatus PCC7942), which contains a carbonic anhydrase-like domain(8) followed by three Rubisco small subunit-like (SSUL) modules connected by flexible linkers; and M35, which lacks the carbonic anhydrase-like domain(11). It has long been speculated that the SSUL modules interact with Rubisco by replacing RbcS(2-4). Here we have reconstituted the Rubisco-CcmM complex and solved its structure. Contrary to expectation, the SSUL modules do not replace RbcS, but bind close to the equatorial region of Rubisco between RbcL dimers, linking Rubisco molecules and inducing phase separation into a liquid-like matrix. Disulfide bond formation in SSUL increases the network flexibility and is required for carboxysome function in vivo. Notably, the formation of the liquid-like condensate of Rubisco is mediated by dynamic interactions with the SSUL domains, rather than by low-complexity sequences, which typically mediate liquid-liquid phase separation in eukaryotes(12,13). Indeed, within the pyrenoids of eukaryotic algae, the functional homologues of carboxysomes, Rubisco adopts a liquid-like state by interacting with the intrinsically disordered protein EPYC1(14). Understanding carboxysome biogenesis will be important for efforts to engineer CO2-concentrating mechanisms in plants(15-19).
		+
		+	Rubisco condensate formation by CcmM in beta-carboxysome biogenesis.,Wang H, Yan X, Aigner H, Bracher A, Nguyen ND, Hee WY, Long BM, Price GD, Hartl FU, Hayer-Hartl M Nature. 2019 Feb;566(7742):131-135. doi: 10.1038/s41586-019-0880-5. Epub 2019 Jan, 23. PMID:30675061<ref>PMID:30675061</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6hbc" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Anacystis nidulans r2]]
	[[Category: Ribulose-bisphosphate carboxylase]]		[[Category: Ribulose-bisphosphate carboxylase]]
	[[Category: Aigner, H]]		[[Category: Aigner, H]]

OCA at 06:51, 12 December 2018

OCA — Wed, 12 Dec 2018 06:51:19 GMT

←Older revision		Revision as of 06:51, 12 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6hbc is ~~ON HOLD until Paper Publication~~	+	==Structure of the repeat unit in the network formed by CcmM and Rubisco from Synechococcus elongatus==
-		+	<StructureSection load='6hbc' size='340' side='right' caption='[[6hbc]], [[Resolution\|resolution]] 2.78Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6hbc]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HBC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HBC FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6hbb\|6hbb]]</td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribulose-bisphosphate_carboxylase Ribulose-bisphosphate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.39 4.1.1.39] </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=6hbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hbc OCA], [http://pdbe.org/6hbc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hbc RCSB], [http://www.ebi.ac.uk/pdbsum/6hbc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hbc ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CCMM_SYNE7 CCMM_SYNE7]] The presence of two potential DNA-binding regions suggests this protein may be a transcriptional regulator. [[http://www.uniprot.org/uniprot/RBL_SYNE7 RBL_SYNE7]] RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate in the photorespiration process. Both reactions occur simultaneously and in competition at the same active site.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ribulose-bisphosphate carboxylase]]
		+	[[Category: Aigner, H]]
		+	[[Category: Bracher, A]]
		+	[[Category: Hartl, F U]]
		+	[[Category: Hayer-Hartl, M]]
		+	[[Category: Hee, W Y]]
		+	[[Category: Long, B M]]
		+	[[Category: Nguyen, N D]]
		+	[[Category: Price, G D]]
		+	[[Category: Wang, H]]
		+	[[Category: Yan, X]]
		+	[[Category: Carboxysome]]
		+	[[Category: Ccmm]]
		+	[[Category: M35]]
		+	[[Category: M58]]
		+	[[Category: Protein binding]]
		+	[[Category: Rubisco]]
		+	[[Category: Ssul domain]]

OCA at 06:01, 12 September 2018

OCA — Wed, 12 Sep 2018 06:01:12 GMT

←Older revision		Revision as of 06:01, 12 September 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6hbc is ON HOLD	+	The entry 6hbc is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 15 Aug 2018 15:06:05 GMT

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

←Older revision

Revision as of 15:06, 15 August 2018

OCA: New page: '''Unreleased structure''' The entry 6hbc is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 15 Aug 2018 15:06:03 GMT

New page: '''Unreleased structure''' The entry 6hbc is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6hbc is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]