1vi8 - Revision history

OCA at 00:04, 28 December 2023

OCA — Thu, 28 Dec 2023 00:04:10 GMT

←Older revision		Revision as of 00:04, 28 December 2023
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	<StructureSection load='1vi8' size='340' side='right'caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1vi8' size='340' side='right'caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~YDII~~, ~~B1686 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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]] 2.2Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [~~http~~://pdbe.org/1vi8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1vi8 ProSAT], [~~http~~://www.topsan.org/Proteins/NYSGXRC/1vi8 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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [https://pdbe.org/1vi8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [https://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vi8 ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~YDII_ECOLI YDII_ECOLI~~]~~] Displays esterase~~ activity toward ~~palmitoyl~~-CoA and ~~pNP~~-~~butyrate~~.	+	[https://www.uniprot.org/uniprot/MENI_ECOLI MENI_ECOLI] Catalyzes the hydrolysis of 1,4-dihydroxy-2-naphthoyl-CoA (DHNA-CoA) to 1,4-dihydroxy-2-naphthoate (DHNA). Also shows significant activity toward a wide range of acyl-CoA thioesters, and minimal activity toward benzoyl-holoEntB.<ref>PMID:15808744</ref> <ref>PMID:23564174</ref> <ref>PMID:24992697</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Burley~~, S K~~]]	+	[[Category: Burley SK]]
-	[[Category: GenomiX~~, Structural]]~~	+	[[Category: Structural GenomiX]]
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 07:37, 30 December 2020

OCA — Wed, 30 Dec 2020 07:37:20 GMT

←Older revision		Revision as of 07:37, 30 December 2020
Line 1:		Line 1:

	==Crystal structure of a putative thioesterase==		==Crystal structure of a putative thioesterase==
-	<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1vi8' size='340' side='right'caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://pdbe.org/1vi8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1vi8 ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://pdbe.org/1vi8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1vi8 ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Burley, S K]]		[[Category: Burley, S K]]
	[[Category: GenomiX, Structural]]		[[Category: GenomiX, Structural]]

OCA at 07:21, 4 April 2018

OCA — Wed, 04 Apr 2018 07:21:35 GMT

←Older revision		Revision as of 07:21, 4 April 2018
Line 1:		Line 1:
		+
	==Crystal structure of a putative thioesterase==		==Crystal structure of a putative thioesterase==
	<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://pdbe.org/1vi8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://pdbe.org/1vi8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1vi8 ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vi/1vi8_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vi/1vi8_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 06:32, 7 February 2016

OCA — Sun, 07 Feb 2016 06:32:45 GMT

←Older revision		Revision as of 06:32, 7 February 2016
Line 16:		Line 16:
	<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=1vi8 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:45, 9 September 2015

OCA — Wed, 09 Sep 2015 22:45:57 GMT

←Older revision		Revision as of 22:45, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://pdbe.org/1vi8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	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 1vi8" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Burley, S K]]		[[Category: Burley, S K]]
	[[Category: GenomiX, Structural]]		[[Category: GenomiX, Structural]]

OCA at 08:39, 24 December 2014

OCA — Wed, 24 Dec 2014 08:39:34 GMT

←Older revision		Revision as of 08:39, 24 December 2014
Line 6:		Line 6:
	<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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YDII_ECOLI YDII_ECOLI]] Displays esterase activity toward palmitoyl-CoA and pNP-butyrate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 12:31, 6 November 2014

OCA — Thu, 06 Nov 2014 12:31:22 GMT

←Older revision		Revision as of 12:31, 6 November 2014
Line 28:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli]]
		+	[[Category: Burley, S K]]
	[[Category: GenomiX, Structural]]		[[Category: GenomiX, Structural]]
		+	[[Category: Structural genomic]]
		+	[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]
		+	[[Category: PSI, Protein structure initiative]]
		+	[[Category: Unknown function]]

OCA at 11:49, 6 November 2014

OCA — Thu, 06 Nov 2014 11:49:30 GMT

←Older revision		Revision as of 11:49, 6 November 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	~~[[Category: Escherichia coli]]~~	+	[[Category: GenomiX, Structural]]
-	~~[[Category: Burley, S K.]]~~	+
-	[[Category: GenomiX, Structural~~.]]~~	+
-	~~[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics.]]~~	+
-	~~[[Category: New york sgx research center for structural genomic]]~~	+
-	~~[[Category: Nysgxrc]]~~	+
-	~~[[Category: Protein structure initiative]]~~	+
-	~~[[Category: Psi]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 19:28, 29 September 2014

OCA — Mon, 29 Sep 2014 19:28:01 GMT

←Older revision		Revision as of 19:28, 29 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1vi8.~~png\|left~~\|200px]]	+	==Crystal structure of a putative thioesterase==
		+	<StructureSection load='1vi8' size='340' side='right' caption='[[1vi8]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1vi8]] is a 8 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=1VI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VI8 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">YDII, B1686 ([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=1vi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vi8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vi8 RCSB], [http://www.ebi.ac.uk/pdbsum/1vi8 PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1vi8 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/vi/1vi8_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 ==
		+	The targets of the Structural GenomiX (SGX) bacterial genomics project were proteins conserved in multiple prokaryotic organisms with no obvious sequence homolog in the Protein Data Bank of known structures. The outcome of this work was 80 structures, covering 60 unique sequences and 49 different genes. Experimental phase determination from proteins incorporating Se-Met was carried out for 45 structures with most of the remainder solved by molecular replacement using members of the experimentally phased set as search models. An automated tool was developed to deposit these structures in the Protein Data Bank, along with the associated X-ray diffraction data (including refined experimental phases) and experimentally confirmed sequences. BLAST comparisons of the SGX structures with structures that had appeared in the Protein Data Bank over the intervening 3.5 years since the SGX target list had been compiled identified homologs for 49 of the 60 unique sequences represented by the SGX structures. This result indicates that, for bacterial structures that are relatively easy to express, purify, and crystallize, the structural coverage of gene space is proceeding rapidly. More distant sequence-structure relationships between the SGX and PDB structures were investigated using PDB-BLAST and Combinatorial Extension (CE). Only one structure, SufD, has a truly unique topology compared to all folds in the PDB.

-	~~{{STRUCTURE_1vi8\| PDB=1vi8 \| SCENE= }}~~	+	Structural analysis of a set of proteins resulting from a bacterial genomics project.,Badger J, Sauder JM, Adams JM, Antonysamy S, Bain K, Bergseid MG, Buchanan SG, Buchanan MD, Batiyenko Y, Christopher JA, Emtage S, Eroshkina A, Feil I, Furlong EB, Gajiwala KS, Gao X, He D, Hendle J, Huber A, Hoda K, Kearins P, Kissinger C, Laubert B, Lewis HA, Lin J, Loomis K, Lorimer D, Louie G, Maletic M, Marsh CD, Miller I, Molinari J, Muller-Dieckmann HJ, Newman JM, Noland BW, Pagarigan B, Park F, Peat TS, Post KW, Radojicic S, Ramos A, Romero R, Rutter ME, Sanderson WE, Schwinn KD, Tresser J, Winhoven J, Wright TA, Wu L, Xu J, Harris TJ Proteins. 2005 Sep 1;60(4):787-96. PMID:16021622<ref>PMID:16021622</ref>

-	~~===Crystal structure~~ of ~~a putative thioesterase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16021622}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1vi8]] is a 8 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=1VI8 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016021622<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Burley, S K.]]		[[Category: Burley, S K.]]

OCA: Protected "1vi8" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 12:34:28 GMT

Protected "1vi8" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:34, 5 January 2013