4uau - Revision history

OCA at 12:27, 20 December 2023

2023-12-20T12:27:48Z

←Older revision		Revision as of 12:27, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UAU FirstGlance]. <br>		<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UAU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</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]] 1.45Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</scene></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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [https://pdbe.org/4uau PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [https://www.ebi.ac.uk/pdbsum/4uau PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uau 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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [https://pdbe.org/4uau PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [https://www.ebi.ac.uk/pdbsum/4uau PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uau ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:12, 22 March 2023

2023-03-22T08:12:40Z

←Older revision		Revision as of 08:12, 22 March 2023
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	<StructureSection load='4uau' size='340' side='right'caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='4uau' size='340' side='right'caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4UAU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UAU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cbbY ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [https://pdbe.org/4uau PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [https://www.ebi.ac.uk/pdbsum/4uau PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uau 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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [~~http~~://pdbe.org/4uau PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4uau PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4uau ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CBBY_CERSP CBBY_CERSP] Highly selective xylulose-1,5-bisphosphate (XuBP) phosphatase. Shows also activity towards ribulose-1,5-bisphosphate (RuBP) and fructose-1,6-bisphosphate (FBP), but not towards fructose-6-phosphate (F6P) or ribulose-5-phosphate (Ru5P) (PubMed:27246049). Degrades xylulose-1,5-bisphosphate, a potent inhibitor of rubisco produced by the rubisco itself (PubMed:27246049).<ref>PMID:27246049</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhodococcus capsulatus molisch 1907~~]]	+	[[Category: Cereibacter sphaeroides]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bracher, A]]	+	[[Category: Bracher A]]
-	[[Category: Hartl~~, F U~~]]	+	[[Category: Hartl FU]]
-	[[Category: Hayer-Hartl, M]]	+	[[Category: Hayer-Hartl M]]
-	[[Category: Sharma, A]]	+	[[Category: Sharma A]]
-	[[Category: Starling-Windhof, A]]	+	[[Category: Starling-Windhof A]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Phosphatase~~]]	+

OCA at 08:54, 21 May 2019

2019-05-21T08:54:00Z

←Older revision		Revision as of 08:54, 21 May 2019
Line 1:		Line 1:

	==Crystal structure of CbbY (mutant D10N) from Rhodobacter sphaeroides in complex with Xylulose-(1,5)bisphosphate, crystal form II==		==Crystal structure of CbbY (mutant D10N) from Rhodobacter sphaeroides in complex with Xylulose-(1,5)bisphosphate, crystal form II==
-	<StructureSection load='4uau' size='340' side='right' caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>	+	<StructureSection load='4uau' size='340' side='right'caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UAU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UAU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [http://pdbe.org/4uau PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [http://www.ebi.ac.uk/pdbsum/4uau PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cbbY ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [http://pdbe.org/4uau PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [http://www.ebi.ac.uk/pdbsum/4uau PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uau ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Rhodococcus capsulatus molisch 1907]]
		+	[[Category: Large Structures]]
	[[Category: Bracher, A]]		[[Category: Bracher, A]]
	[[Category: Hartl, F U]]		[[Category: Hartl, F U]]

OCA at 08:01, 20 June 2016

2016-06-20T08:01:13Z

←Older revision		Revision as of 08:01, 20 June 2016
Line 1:		Line 1:
		+
	==Crystal structure of CbbY (mutant D10N) from Rhodobacter sphaeroides in complex with Xylulose-(1,5)bisphosphate, crystal form II==		==Crystal structure of CbbY (mutant D10N) from Rhodobacter sphaeroides in complex with Xylulose-(1,5)bisphosphate, crystal form II==
	<StructureSection load='4uau' size='340' side='right' caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='4uau' size='340' side='right' caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UAU FirstGlance]. <br>		<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UAU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [http://www.ebi.ac.uk/pdbsum/4uau PDBsum]</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [http://pdbe.org/4uau PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [http://www.ebi.ac.uk/pdbsum/4uau PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) catalyses the conversion of atmospheric carbon dioxide into organic compounds in photosynthetic organisms. Alongside carboxylating the five-carbon sugar ribulose-1,5-bisphosphate (RuBP)(1-3), Rubisco produces a small amount of xylulose-1,5-bisphosphate (XuBP), a potent inhibitor of Rubisco(4). The AAA+ protein Rubisco activase removes XuBP from the active site of Rubisco in an ATP-dependent process(5,6). However, free XuBP rapidly rebinds to Rubisco, perpetuating its inhibitory effect. Here, we combine biochemical and structural analyses to show that the CbbY protein of the photosynthetic bacterium Rhodobacter sphaeroides and Arabidopsis thaliana is a highly selective XuBP phosphatase. We also show that CbbY converts XuBP to the non-inhibitory compound xylulose-5-phosphate, which is recycled back to RuBP. We solve the crystal structures of CbbY from R. sphaeroides and A. thaliana, and through mutational analysis show that the cap domain of the protein confers the selectivity for XuBP over RuBP. Finally, in vitro experiments with CbbY from R. sphaeroides reveal that CbbY cooperates with Rubisco activase to prevent a detrimental build-up of XuBP at the Rubisco active site. We suggest that CbbY, which is conserved in algae and plants, is an important component of the cellular machinery that has evolved to deal with the shortcomings of the ancient enzyme Rubisco.
		+
		+	Degradation of potent Rubisco inhibitor by selective sugar phosphatase.,Bracher A, Sharma A, Starling-Windhof A, Hartl FU, Hayer-Hartl M Nat Plants. 2015 Jan 8;1:14002. doi: 10.1038/nplants.2014.2. PMID:27246049<ref>PMID:27246049</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4uau" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:10, 14 January 2015

2015-01-14T08:10:56Z

←Older revision		Revision as of 08:10, 14 January 2015
Line 9:		Line 9:
	</StructureSection>		</StructureSection>
	[[Category: Bracher, A]]		[[Category: Bracher, A]]
		+	[[Category: Hartl, F U]]
		+	[[Category: Hayer-Hartl, M]]
		+	[[Category: Sharma, A]]
		+	[[Category: Starling-Windhof, A]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Phosphatase]]		[[Category: Phosphatase]]

OCA at 14:55, 31 December 2014

2014-12-31T14:55:02Z

←Older revision		Revision as of 14:55, 31 December 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of CbbY (mutant D10N) from Rhodobacter sphaeroides in complex with Xylulose-(1,5)bisphosphate, crystal form II==
-		+	<StructureSection load='4uau' size='340' side='right' caption='[[4uau]], [[Resolution\|resolution]] 1.45Å' scene=''>
-	~~The entry~~ 4uau is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4uau]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UAU FirstGlance]. <br>
-	~~Authors~~: ~~Bracher, A~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XBP:XYLULOSE-1,5-BISPHOSPHATE'>XBP</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=4uau FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uau OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uau RCSB], [http://www.ebi.ac.uk/pdbsum/4uau PDBsum]</span></td></tr>
-	~~Description~~:	+	</table>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	__TOC__
		+	</StructureSection>
	[[Category: Bracher, A]]		[[Category: Bracher, A]]
		+	[[Category: Hydrolase]]
		+	[[Category: Phosphatase]]

OCA at 18:18, 24 December 2014

2014-12-24T18:18:35Z

←Older revision		Revision as of 18:18, 24 December 2014
Line 5:		Line 5:
	Authors: Bracher, A.		Authors: Bracher, A.

-	Description:	+	Description:
		+	[[Category: Unreleased Structures]]
		+	[[Category: Bracher, A]]

OCA: Protected "4uau" [edit=sysop:move=sysop]

2014-08-20T15:07:12Z

Protected "4uau" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:07, 20 August 2014

OCA: New page: '''Unreleased structure''' The entry 4uau is ON HOLD until Paper Publication Authors: Bracher, A. Description:

2014-08-20T15:07:10Z

New page: '''Unreleased structure''' The entry 4uau is ON HOLD until Paper Publication Authors: Bracher, A. Description:

New page

'''Unreleased structure'''

The entry 4uau is ON HOLD until Paper Publication

Authors: Bracher, A.

Description: