1tq5 - Revision history

OCA at 08:43, 1 May 2024

OCA — Wed, 01 May 2024 08:43:33 GMT

←Older revision		Revision as of 08:43, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='1tq5' size='340' side='right'caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='1tq5' size='340' side='right'caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CD:CADMIUM+ION'>CD</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]] 1.76Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">YHHW, B3439 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [https://pdbe.org/1tq5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [https://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tq5 ProSAT], [https://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [https://pdbe.org/1tq5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [https://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tq5 ProSAT], [https://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/YHHW_ECOLI YHHW_ECOLI]] Has quercetin 2,3-dioxygenase activity in vitro. Its physiological role is unknown; however, may provide a mechanism that would avoid inhibition of key cellular proteins, such as DNA gyrase, by quercetin.	+	[https://www.uniprot.org/uniprot/YHHW_ECOLI YHHW_ECOLI] Has quercetin 2,3-dioxygenase activity in vitro. Its physiological role is unknown; however, may provide a mechanism that would avoid inhibition of key cellular proteins, such as DNA gyrase, by quercetin.
	== 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=1tq5 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=1tq5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Pirin is a recently identified eukaryotic protein implicated in transcriptional activation and apoptosis. Homologues of Pirin are highly conserved in both prokaryotes and eukaryotes, but their function remains poorly understood. We present here the crystal structure of the yhhW gene product, a putative Pirin homologue, from Escherichia coli and confirm its structural similarity to Pirin. The YhhW protein displays a bicupin fold with a single N-terminal metal coordination site. Molecular surface comparisons of YhhW and Pirin with structurally similar proteins suggested quercetin as a potential ligand. We demonstrate that both bacterial and human Pirins have quercetinase activity, which is inhibited by the addition of typical inhibitors of the quercetin 2,3-dioxygenase reaction. We also demonstrate the release of carbon monoxide as a reaction product. This is the first report of enzymatic activity for any member of the Pirin family and may be an important connection to their roles in transcriptional regulation.
-
-	Structural and biochemical analysis reveal pirins to possess quercetinase activity.,Adams M, Jia Z J Biol Chem. 2005 Aug 5;280(31):28675-82. Epub 2005 Jun 11. PMID:15951572<ref>PMID:15951572</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1tq5" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Adams, M]]	+	[[Category: Adams M]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Jia Z]]
-	[[Category: Jia, Z]]	+
-	~~[[Category: Bicupin]]~~	+
-	~~[[Category: Bsgi]]~~	+
-	~~[[Category: Pirin]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 06:04, 28 April 2021

OCA — Wed, 28 Apr 2021 06:04:28 GMT

←Older revision		Revision as of 06:04, 28 April 2021
Line 3:		Line 3:
	<StructureSection load='1tq5' size='340' side='right'caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='1tq5' size='340' side='right'caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [~~http~~://pdbe.org/1tq5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1tq5 ProSAT], [~~http~~://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [https://pdbe.org/1tq5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [https://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tq5 ProSAT], [https://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/YHHW_ECOLI YHHW_ECOLI]] Has quercetin 2,3-dioxygenase activity in vitro. Its physiological role is unknown; however, may provide a mechanism that would avoid inhibition of key cellular proteins, such as DNA gyrase, by quercetin.	+	[[https://www.uniprot.org/uniprot/YHHW_ECOLI YHHW_ECOLI]] Has quercetin 2,3-dioxygenase activity in vitro. Its physiological role is unknown; however, may provide a mechanism that would avoid inhibition of key cellular proteins, such as DNA gyrase, by quercetin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:02, 24 July 2019

OCA — Wed, 24 Jul 2019 07:02:52 GMT

←Older revision		Revision as of 07:02, 24 July 2019
Line 1:		Line 1:

	==Crystal Structure of YhhW from Escherichia coli==		==Crystal Structure of YhhW from Escherichia coli==
-	<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>	+	<StructureSection load='1tq5' size='340' side='right'caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Adams, M]]		[[Category: Adams, M]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 08:40, 21 March 2018

OCA — Wed, 21 Mar 2018 08:40:14 GMT

←Older revision		Revision as of 08:40, 21 March 2018
Line 1:		Line 1:
		+
	==Crystal Structure of YhhW from Escherichia coli==		==Crystal Structure of YhhW from Escherichia coli==
	<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://pdbe.org/1tq5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://pdbe.org/1tq5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1tq5 ProSAT], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/tq/1tq5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/tq/1tq5_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>

OCA at 04:42, 7 February 2016

OCA — Sun, 07 Feb 2016 04:42:56 GMT

←Older revision		Revision as of 04:42, 7 February 2016
Line 18:		Line 18:
	<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=1tq5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 21:57, 9 September 2015

OCA — Wed, 09 Sep 2015 21:57:30 GMT

←Older revision		Revision as of 21:57, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://pdbe.org/1tq5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 1tq5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Adams, M]]		[[Category: Adams, M]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 07:56, 24 December 2014

OCA — Wed, 24 Dec 2014 07:56:39 GMT

←Older revision		Revision as of 07:56, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YHHW_ECOLI YHHW_ECOLI]] Has quercetin 2,3-dioxygenase activity in vitro. Its physiological role is unknown; however, may provide a mechanism that would avoid inhibition of key cellular proteins, such as DNA gyrase, by quercetin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Adams, M.]]	+	[[Category: Adams, M]]
-	[[Category: ~~BSGI, Montreal-Kingston Bacterial~~ Structural ~~Genomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Jia, Z.]]	+	[[Category: Jia, Z]]
	[[Category: Bicupin]]		[[Category: Bicupin]]
	[[Category: Bsgi]]		[[Category: Bsgi]]
-	[[Category: Montreal-kingston bacterial structural genomics initiative]]
	[[Category: Pirin]]		[[Category: Pirin]]
-	[[Category: Structural genomic]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 19:03, 29 September 2014

OCA — Mon, 29 Sep 2014 19:03:10 GMT

←Older revision		Revision as of 19:03, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1tq5.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of YhhW from Escherichia coli==
		+	<StructureSection load='1tq5' size='340' side='right' caption='[[1tq5]], [[Resolution\|resolution]] 1.76Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TQ5 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YHHW, B3439 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1tq5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tq5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1tq5 RCSB], [http://www.ebi.ac.uk/pdbsum/1tq5 PDBsum], [http://www.topsan.org/Proteins/BSGI/1tq5 TOPSAN]</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/tq/1tq5_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 ==
		+	Pirin is a recently identified eukaryotic protein implicated in transcriptional activation and apoptosis. Homologues of Pirin are highly conserved in both prokaryotes and eukaryotes, but their function remains poorly understood. We present here the crystal structure of the yhhW gene product, a putative Pirin homologue, from Escherichia coli and confirm its structural similarity to Pirin. The YhhW protein displays a bicupin fold with a single N-terminal metal coordination site. Molecular surface comparisons of YhhW and Pirin with structurally similar proteins suggested quercetin as a potential ligand. We demonstrate that both bacterial and human Pirins have quercetinase activity, which is inhibited by the addition of typical inhibitors of the quercetin 2,3-dioxygenase reaction. We also demonstrate the release of carbon monoxide as a reaction product. This is the first report of enzymatic activity for any member of the Pirin family and may be an important connection to their roles in transcriptional regulation.

-	~~{{STRUCTURE_1tq5\| PDB=1tq5 \| SCENE= }}~~	+	Structural and biochemical analysis reveal pirins to possess quercetinase activity.,Adams M, Jia Z J Biol Chem. 2005 Aug 5;280(31):28675-82. Epub 2005 Jun 11. PMID:15951572<ref>PMID:15951572</ref>

-	~~===Crystal Structure~~ of ~~YhhW from Escherichia coli===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15951572}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1tq5]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015951572<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Adams, M.]]		[[Category: Adams, M.]]

OCA: Protected "1tq5" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 11:53:50 GMT

Protected "1tq5" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:53, 5 January 2013

OCA at 11:53, 5 January 2013

OCA — Sat, 05 Jan 2013 11:53:49 GMT

←Older revision		Revision as of 11:53, 5 January 2013
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-	{{Seed}}
	[[Image:1tq5.png\|left\|200px]]		[[Image:1tq5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1tq5", 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_1tq5\| PDB=1tq5 \| SCENE= }}		{{STRUCTURE_1tq5\| PDB=1tq5 \| SCENE= }}

	===Crystal Structure of YhhW from Escherichia coli===		===Crystal Structure of YhhW from Escherichia coli===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15951572}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15951572 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15951572}}		{{ABSTRACT_PUBMED_15951572}}

	==About this Structure==		==About this Structure==
-	~~1TQ5~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA].	+	[[1tq5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TQ5 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15951572~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015951572</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Adams, M.]]		[[Category: Adams, M.]]
Line 34:		Line 22:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Unknown function]]		[[Category: Unknown function]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 29 20:51:43 2009''