3c2o - Revision history

OCA at 09:32, 21 February 2024

2024-02-21T09:32:33Z

←Older revision		Revision as of 09:32, 21 February 2024
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	<StructureSection load='3c2o' size='340' side='right'caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='3c2o' size='340' side='right'caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2O FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</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]] 2.3Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[3c2d\|3c2d]]~~, [[~~3c2e~~\|~~3c2e~~]]~~, [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>BNA6, QPT1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~4932 ATCC 18824])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </~~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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [https://pdbe.org/3c2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [https://www.ebi.ac.uk/pdbsum/3c2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2o 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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [https://pdbe.org/3c2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [https://www.ebi.ac.uk/pdbsum/3c2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NADC_YEAST NADC_YEAST]] Involved in the catabolism of quinolinic acid (QA) (By similarity).	+	[https://www.uniprot.org/uniprot/NADC_YEAST NADC_YEAST] Involved in the catabolism of quinolinic acid (QA) (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2o ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Quinolinic acid phosphoribosyl transferase (QAPRTase, EC 2.4.2.19) is a 32 kDa enzyme encoded by the BNA6 gene in yeast and catalyzes the formation of nicotinate mononucleotide from quinolinate and 5-phosphoribosyl-1-pyrophosphate (PRPP). QAPRTase plays a key role in the tryptophan degradation pathway via kynurenine, leading to the de novo biosynthesis of NAD (+) and clearing the neurotoxin quinolinate. To improve our understanding of the specificity of the eukaryotic enzyme and the course of events associated with catalysis, we have determined the crystal structures of the apo and singly bound forms with the substrates quinolinate and PRPP. This reveals that the enzyme folds in a manner similar to that of various prokaryotic forms which are approximately 30% identical in sequence. In addition, the structure of the Michaelis complex is approximated by PRPP and the quinolinate analogue phthalate bound to the active site. These results allow insight into the kinetic mechanism of QAPRTase and provide an understanding of structural diversity in the active site of the Saccharomyces cerevisiae enzyme when compared to prokaryotic homologues.
-
-	Comprehensive X-ray Structural Studies of the Quinolinate Phosphoribosyl Transferase (BNA6) from Saccharomyces cerevisiae.,di Luccio E, Wilson DK Biochemistry. 2008 Apr 1;47(13):4039-50. Epub 2008 Mar 6. PMID:18321072<ref>PMID:18321072</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3c2o" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]		*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 18824]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Luccio, E di~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: Wilson~~, D K~~]]	+	[[Category: Wilson DK]]
-	[[Category: ~~Bna6]]~~	+	[[Category: Di Luccio E]]
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Glycosyltransferase]]~~	+
-	~~[[Category: Nucleus]]~~	+
-	~~[[Category: Prtase]]~~	+
-	~~[[Category: Pyridine nucleotide biosynthesis]]~~	+
-	~~[[Category: Qprtase]]~~	+
-	~~[[Category: Quinolinate]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:40, 27 January 2022

2022-01-27T07:40:52Z

←Older revision		Revision as of 07:40, 27 January 2022
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	==Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate==		==Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate==
-	<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='3c2o' size='340' side='right'caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3C2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [~~http~~://pdbe.org/3c2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3c2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2o 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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [https://pdbe.org/3c2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [https://www.ebi.ac.uk/pdbsum/3c2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NADC_YEAST NADC_YEAST]] Involved in the catabolism of quinolinic acid (QA) (By similarity).	+	[[https://www.uniprot.org/uniprot/NADC_YEAST NADC_YEAST]] Involved in the catabolism of quinolinic acid (QA) (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2o_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2o_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 31:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 3c2o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3c2o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
		+	[[Category: Large Structures]]
	[[Category: Luccio, E di]]		[[Category: Luccio, E di]]
	[[Category: Wilson, D K]]		[[Category: Wilson, D K]]

OCA at 08:17, 25 October 2017

2017-10-25T08:17:11Z

←Older revision		Revision as of 08:17, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate==		==Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate==
	<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://pdbe.org/3c2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o 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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://pdbe.org/3c2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 3c2o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3c2o" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
	== References ==		== References ==
	<references/>		<references/>
Line 41:		Line 39:
	[[Category: Wilson, D K]]		[[Category: Wilson, D K]]
	[[Category: Bna6]]		[[Category: Bna6]]
		+	[[Category: Cytoplasm]]
	[[Category: Glycosyltransferase]]		[[Category: Glycosyltransferase]]
	[[Category: Nucleus]]		[[Category: Nucleus]]

OCA at 12:01, 7 February 2016

2016-02-07T12:01:45Z

←Older revision		Revision as of 12:01, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ~~Saccharomyces cerevisiae~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o 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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://pdbe.org/3c2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 3c2o" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Saccharomyces cerevisiae~~]]	+	[[Category: Atcc 18824]]
	[[Category: Luccio, E di]]		[[Category: Luccio, E di]]
	[[Category: Wilson, D K]]		[[Category: Wilson, D K]]

OCA at 14:55, 24 December 2014

2014-12-24T14:55:37Z

←Older revision		Revision as of 14:55, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2O FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o 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=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NADC_YEAST NADC_YEAST]] Involved in the catabolism of quinolinic acid (QA) (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Luccio, E di.]]	+	[[Category: Luccio, E di]]
-	[[Category: Wilson, D K.]]	+	[[Category: Wilson, D K]]
	[[Category: Bna6]]		[[Category: Bna6]]
	[[Category: Glycosyltransferase]]		[[Category: Glycosyltransferase]]

OCA at 21:38, 2 October 2014

2014-10-02T21:38:09Z

←Older revision		Revision as of 21:38, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3c2o.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate==
		+	<StructureSection load='3c2o' size='340' side='right' caption='[[3c2o]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C2O FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NTM:QUINOLINIC+ACID'>NTM</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3c2d\|3c2d]], [[3c2e\|3c2e]], [[3c2f\|3c2f]], [[3c2r\|3c2r]], [[3c2v\|3c2v]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BNA6, QPT1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate-nucleotide_diphosphorylase_(carboxylating) Nicotinate-nucleotide diphosphorylase (carboxylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.19 2.4.2.19] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3c2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c2o RCSB], [http://www.ebi.ac.uk/pdbsum/3c2o PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2o_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Quinolinic acid phosphoribosyl transferase (QAPRTase, EC 2.4.2.19) is a 32 kDa enzyme encoded by the BNA6 gene in yeast and catalyzes the formation of nicotinate mononucleotide from quinolinate and 5-phosphoribosyl-1-pyrophosphate (PRPP). QAPRTase plays a key role in the tryptophan degradation pathway via kynurenine, leading to the de novo biosynthesis of NAD (+) and clearing the neurotoxin quinolinate. To improve our understanding of the specificity of the eukaryotic enzyme and the course of events associated with catalysis, we have determined the crystal structures of the apo and singly bound forms with the substrates quinolinate and PRPP. This reveals that the enzyme folds in a manner similar to that of various prokaryotic forms which are approximately 30% identical in sequence. In addition, the structure of the Michaelis complex is approximated by PRPP and the quinolinate analogue phthalate bound to the active site. These results allow insight into the kinetic mechanism of QAPRTase and provide an understanding of structural diversity in the active site of the Saccharomyces cerevisiae enzyme when compared to prokaryotic homologues.

-	~~{{STRUCTURE_3c2o\| PDB=3c2o \| SCENE= }}~~	+	Comprehensive X-ray Structural Studies of the Quinolinate Phosphoribosyl Transferase (BNA6) from Saccharomyces cerevisiae.,di Luccio E, Wilson DK Biochemistry. 2008 Apr 1;47(13):4039-50. Epub 2008 Mar 6. PMID:18321072<ref>PMID:18321072</ref>

-	~~===Crystal structure~~ of the ~~quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18321072}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3c2o]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA].~~	+

	==See Also==		==See Also==
	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]		*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018321072<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Luccio, E di.]]		[[Category: Luccio, E di.]]

OCA: Protected "3c2o" [edit=sysop:move=sysop]

2013-01-07T21:11:04Z

Protected "3c2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:11, 7 January 2013

OCA at 21:10, 7 January 2013

2013-01-07T21:10:59Z

←Older revision		Revision as of 21:10, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3c2o.png\|left\|200px]]		[[Image:3c2o.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3c2o", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3c2o\| PDB=3c2o \| SCENE= }}		{{STRUCTURE_3c2o\| PDB=3c2o \| SCENE= }}

	===Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate===		===Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18321072}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18321072 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18321072}}		{{ABSTRACT_PUBMED_18321072}}

	==About this Structure==		==About this Structure==
-	~~3C2O~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA].	+	[[3c2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA].
		+
		+	==See Also==
		+	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18321072~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018321072</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Luccio, E di.]]		[[Category: Luccio, E di.]]
	[[Category: Wilson, D K.]]		[[Category: Wilson, D K.]]
	[[Category: Bna6]]		[[Category: Bna6]]
-	[[Category: Cytoplasm]]
	[[Category: Glycosyltransferase]]		[[Category: Glycosyltransferase]]
-	[[Category: Mechanism]]
	[[Category: Nucleus]]		[[Category: Nucleus]]
	[[Category: Prtase]]		[[Category: Prtase]]
Line 37:		Line 26:
	[[Category: Quinolinate]]		[[Category: Quinolinate]]
	[[Category: Transferase]]		[[Category: Transferase]]
-	[[Category: X-ray structure]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:39:55 2009''

OCA at 11:39, 16 February 2009

2009-02-16T11:39:57Z

←Older revision		Revision as of 11:39, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3C2O is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA].	+	3C2O is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2O OCA].

	==Reference==		==Reference==
-	Comprehensive X-ray Structural Studies of the Quinolinate Phosphoribosyl Transferase (BNA6) from Saccharomyces cerevisiae., di Luccio E, Wilson DK, Biochemistry. 2008 Apr 1;47(13):4039-50. Epub 2008 Mar 6. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18321072 18321072]~~	+	<ref group="xtra">PMID:18321072</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Single protein]]
	[[Category: Luccio, E di.]]		[[Category: Luccio, E di.]]
	[[Category: Wilson, D K.]]		[[Category: Wilson, D K.]]
Line 40:		Line 39:
	[[Category: X-ray structure]]		[[Category: X-ray structure]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Jul 27~~ 16:09:~~10 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:39:55 2009''

OCA at 13:09, 27 July 2008

2008-07-27T13:09:11Z

←Older revision		Revision as of 13:09, 27 July 2008
Line 1:		Line 1:
-	[[Image:3c2o.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:3c2o.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_3c2o\| PDB=3c2o \| SCENE= }}		{{STRUCTURE_3c2o\| PDB=3c2o \| SCENE= }}

-	~~'''~~Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate~~'''~~	+	===Crystal structure of the quinolinate phosphoribosyl transferase (BNA6) from Sachharomyces cerevisiae complexed with quinolinate===


-	~~==Overview==~~	+	<!--
-	~~Quinolinic acid phosphoribosyl transferase (QAPRTase~~, ~~EC 2.4.2.19) is a 32 kDa enzyme encoded by~~ the BNA6 gene in yeast and catalyzes the formation of nicotinate mononucleotide from quinolinate and 5-phosphoribosyl-1-pyrophosphate (PRPP). QAPRTase plays a key role in the tryptophan degradation pathway via kynurenine, leading to the ~~de novo biosynthesis of NAD~~ (~~+) and clearing the neurotoxin quinolinate~~. To improve our understanding of the specificity of the eukaryotic enzyme and the course of events associated with catalysis, we have determined the crystal structures of the apo and singly bound forms with the substrates quinolinate and PRPP. ~~This reveals that the enzyme folds in a manner similar to that of various prokaryotic forms which are approximately 30% identical in sequence. In addition~~, ~~the structure of the Michaelis complex~~ is ~~approximated by PRPP and~~ the quinolinate analogue phthalate bound to the active site. These results allow insight into the kinetic mechanism of QAPRTase and provide an understanding of structural diversity in the active site of the Saccharomyces cerevisiae enzyme when compared to prokaryotic homologues.	+	The line below this paragraph, {{ABSTRACT_PUBMED_18321072}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18321072 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18321072}}

	==About this Structure==		==About this Structure==
Line 35:		Line 39:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: X-ray structure]]		[[Category: X-ray structure]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Apr 24 09~~:34:26 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 16:09:10 2008''