4uux - Revision history

OCA at 10:36, 10 January 2024

OCA — Wed, 10 Jan 2024 10:36:48 GMT

←Older revision		Revision as of 10:36, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UUX FirstGlance]. <br>		<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UUX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.99Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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'>[https://proteopedia.org/fgij/fg.htm?mol=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [https://pdbe.org/4uux PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [https://www.ebi.ac.uk/pdbsum/4uux PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uux 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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [https://pdbe.org/4uux PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [https://www.ebi.ac.uk/pdbsum/4uux PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uux ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:39, 29 March 2023

OCA — Wed, 29 Mar 2023 07:39:52 GMT

←Older revision		Revision as of 07:39, 29 March 2023
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	<StructureSection load='4uux' size='340' side='right'caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='4uux' size='340' side='right'caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4UUX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UUX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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" id="ligandDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]~~</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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [https://pdbe.org/4uux PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [https://www.ebi.ac.uk/pdbsum/4uux PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uux 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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [~~http~~://pdbe.org/4uux PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4uux PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4uux ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5SHB0_THET8 Q5SHB0_THET8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thet8~~]]	+	[[Category: Thermus thermophilus HB8]]
-	[[Category: Derrick, J]]	+	[[Category: Derrick J]]
-	[[Category: Karuppiah, V]]	+	[[Category: Karuppiah V]]
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Competence]]~~	+
-	~~[[Category: Damage]]~~	+
-	~~[[Category: Nad recycling~~]]	+

OCA at 08:25, 23 May 2019

OCA — Thu, 23 May 2019 08:25:21 GMT

←Older revision		Revision as of 08:25, 23 May 2019
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	==Competence or damage-inducible protein CinA from Thermus thermophilus==		==Competence or damage-inducible protein CinA from Thermus thermophilus==
-	<StructureSection load='4uux' size='340' side='right' caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>	+	<StructureSection load='4uux' size='340' side='right'caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UUX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UUX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]</td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Thet8]]
	[[Category: Derrick, J]]		[[Category: Derrick, J]]
	[[Category: Karuppiah, V]]		[[Category: Karuppiah, V]]

OCA at 12:42, 11 August 2016

OCA — Thu, 11 Aug 2016 12:42:51 GMT

←Older revision		Revision as of 12:42, 11 August 2016
Line 1:		Line 1:
		+
	==Competence or damage-inducible protein CinA from Thermus thermophilus==		==Competence or damage-inducible protein CinA from Thermus thermophilus==
	<StructureSection load='4uux' size='340' side='right' caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>		<StructureSection load='4uux' size='340' side='right' caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]</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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [http://www.ebi.ac.uk/pdbsum/4uux 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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [http://pdbe.org/4uux PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [http://www.ebi.ac.uk/pdbsum/4uux PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uux ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4uux" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:04, 17 December 2014

OCA — Wed, 17 Dec 2014 10:04:11 GMT

←Older revision		Revision as of 10:04, 17 December 2014
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Derrick, J.]]	+	[[Category: Derrick, J]]
-	[[Category: Karuppiah, V.]]	+	[[Category: Karuppiah, V]]
	[[Category: Biosynthetic protein]]		[[Category: Biosynthetic protein]]
	[[Category: Competence]]		[[Category: Competence]]
	[[Category: Damage]]		[[Category: Damage]]
	[[Category: Nad recycling]]		[[Category: Nad recycling]]

OCA at 09:12, 29 October 2014

OCA — Wed, 29 Oct 2014 09:12:58 GMT

←Older revision		Revision as of 09:12, 29 October 2014
Line 7:		Line 7:
	<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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [http://www.ebi.ac.uk/pdbsum/4uux 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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [http://www.ebi.ac.uk/pdbsum/4uux PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	CinA is a widely distributed protein in Gram-positive and Gram-negative bacteria. It is associated with natural competence and is proposed to have a function as an enzyme participating in the pyridine nucleotide cycle, which recycles products formed by non-redox uses of NAD. Here we report the determination of the crystal structure of CinA from Thermus thermophilus, in complex with several ligands. CinA was shown to have both nicotinamide mononucleotide (NMN) deamidase and ADP-ribose pyrophosphatase activities. The crystal structure shows an unusual asymmetric dimer, with three domains for each chain; the C-terminal domain harbours the NMN deamidase activity and the structure of a complex with the product nicotinate mononucleotide suggests a mechanism for deamidation. The N-terminal domain belongs to the COG1058 family and is associated with the ADP-ribose pyrophosphatase activity. The asymmetry in the CinA dimer arises from two alternative orientations of the COG1058 domains, only one of which forms a contact with the KH-type domain from the other chain, effectively closing the active site into, we propose, a catalytically competent state. Structures of complexes with Mg2+/ADP-ribose, Mg2+/ATP and Mg2+/AMP suggest a mechanism for the ADP-ribose pyrophosphatase reaction which involves a rotation of the COG1058 domain dimer as part of the reaction cycle, so that each active site oscillates between open and closed forms, thus promoting catalysis.
		+
		+	Structure and Mechanism of the Bifunctional CinA Enzyme from Thermus thermophilus.,Karuppiah V, Thistlethwaite A, Dajani R, Warwicker J, Derrick JP J Biol Chem. 2014 Oct 13. pii: jbc.M114.608448. PMID:25313401<ref>PMID:25313401</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:35, 22 October 2014

OCA — Wed, 22 Oct 2014 08:35:14 GMT

←Older revision		Revision as of 08:35, 22 October 2014
Line 10:		Line 10:
	</StructureSection>		</StructureSection>
	[[Category: Derrick, J.]]		[[Category: Derrick, J.]]
-	[[Category: ~~Karrupiah~~, V.]]	+	[[Category: Karuppiah, V.]]
	[[Category: Biosynthetic protein]]		[[Category: Biosynthetic protein]]
	[[Category: Competence]]		[[Category: Competence]]
	[[Category: Damage]]		[[Category: Damage]]
	[[Category: Nad recycling]]		[[Category: Nad recycling]]

OCA at 11:05, 20 October 2014

OCA — Mon, 20 Oct 2014 11:05:52 GMT

←Older revision		Revision as of 11:05, 20 October 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Competence or damage-inducible protein CinA from Thermus thermophilus==
-		+	<StructureSection load='4uux' size='340' side='right' caption='[[4uux]], [[Resolution\|resolution]] 1.99Å' scene=''>
-	~~The entry~~ 4uux is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4uux]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UUX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UUX FirstGlance]. <br>
-	~~Authors~~: Derrick, J., Karrupiah, V.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uuw\|4uuw]]</td></tr>
-	~~Description~~: Competence ~~or damage-inducible protein CinA from Thermus thermophilus~~	+	<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=4uux FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uux OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uux RCSB], [http://www.ebi.ac.uk/pdbsum/4uux PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Derrick, J.]]
		+	[[Category: Karrupiah, V.]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Competence]]
		+	[[Category: Damage]]
		+	[[Category: Nad recycling]]

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

OCA — Thu, 07 Aug 2014 01:38:03 GMT

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

←Older revision

Revision as of 01:38, 7 August 2014

OCA: New page: '''Unreleased structure''' The entry 4uux is ON HOLD Authors: Derrick, J., Karrupiah, V. Description: Competence or damage-inducible protein CinA from Thermus thermophilus

OCA — Thu, 07 Aug 2014 01:38:02 GMT

New page: '''Unreleased structure''' The entry 4uux is ON HOLD Authors: Derrick, J., Karrupiah, V. Description: Competence or damage-inducible protein CinA from Thermus thermophilus

New page

'''Unreleased structure'''

The entry 4uux is ON HOLD

Authors: Derrick, J., Karrupiah, V.

Description: Competence or damage-inducible protein CinA from Thermus thermophilus