1o60 - Revision history

OCA at 23:46, 27 December 2023

OCA — Wed, 27 Dec 2023 23:46:31 GMT

←Older revision		Revision as of 23:46, 27 December 2023
Line 3:		Line 3:
	<StructureSection load='1o60' size='340' side='right'caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1o60' size='340' side='right'caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium~~ influenzae~~" lehmann and neumann 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1O60 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O60 FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.8Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~727~~ "~~Bacterium influenzae~~" ~~Lehmann and Neumann 1896])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55]~~ </~~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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [https://pdbe.org/1o60 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [https://www.ebi.ac.uk/pdbsum/1o60 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o60 ProSAT]</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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [~~http~~://pdbe.org/1o60 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1o60 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1o60 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KDSA_HAEIN KDSA_HAEIN]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacterium~~ influenzae ~~lehmann and neumann 1896]]~~	+	[[Category: Haemophilus influenzae]]
-	~~[[Category: 3-deoxy-8-phosphooctulonate synthase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: GenomiX~~, Structural]]~~	+	[[Category: Structural GenomiX]]
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:04, 2 December 2020

OCA — Wed, 02 Dec 2020 09:04:33 GMT

←Older revision		Revision as of 09:04, 2 December 2020
Line 1:		Line 1:

	==Crystal structure of KDO-8-phosphate synthase==		==Crystal structure of KDO-8-phosphate synthase==
-	<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1o60' size='340' side='right'caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1O60 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1O60 FirstGlance]. <br>
	</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>		</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">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://pdbe.org/1o60 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1o60 ProSAT]</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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://pdbe.org/1o60 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1o60 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1o60" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1o60" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Kdo-8-phosphate synthase\|Kdo-8-phosphate synthase]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	[[Category: Bacterium influenzae lehmann and neumann 1896]]		[[Category: Bacterium influenzae lehmann and neumann 1896]]
	[[Category: 3-deoxy-8-phosphooctulonate synthase]]		[[Category: 3-deoxy-8-phosphooctulonate synthase]]
		+	[[Category: Large Structures]]
	[[Category: GenomiX, Structural]]		[[Category: GenomiX, Structural]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 07:22, 7 February 2018

OCA — Wed, 07 Feb 2018 07:22:52 GMT

←Older revision		Revision as of 07:22, 7 February 2018
Line 1:		Line 1:
		+
	==Crystal structure of KDO-8-phosphate synthase==		==Crystal structure of KDO-8-phosphate synthase==
	<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://pdbe.org/1o60 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://pdbe.org/1o60 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1o60 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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/o6/1o60_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o6/1o60_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1o60" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1o60" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Kdo-8-phosphate synthase\|Kdo-8-phosphate synthase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 01:22, 9 February 2016

OCA — Tue, 09 Feb 2016 01:22:30 GMT

←Older revision		Revision as of 01:22, 9 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=1o60 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:14, 10 September 2015

OCA — Thu, 10 Sep 2015 17:14:30 GMT

←Older revision		Revision as of 17:14, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_influenzae Haemophilus~~ influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O60 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O60 FirstGlance]. <br>
	</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>		</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">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 ~~Haemophilus~~ influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://pdbe.org/1o60 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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 1o60" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacterium influenzae lehmann and neumann 1896]]
	[[Category: 3-deoxy-8-phosphooctulonate synthase]]		[[Category: 3-deoxy-8-phosphooctulonate synthase]]
-	[[Category: Haemophilus influenzae]]
	[[Category: GenomiX, Structural]]		[[Category: GenomiX, Structural]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 16:49, 5 January 2015

OCA — Mon, 05 Jan 2015 16:49:58 GMT

←Older revision		Revision as of 16:49, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O60 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O60 FirstGlance]. <br>
-	</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>	+	</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">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: 3-deoxy-8-phosphooctulonate synthase]]		[[Category: 3-deoxy-8-phosphooctulonate synthase]]
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
-	[[Category: GenomiX, Structural.]]	+	[[Category: GenomiX, Structural]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 13:57, 28 September 2014

OCA — Sun, 28 Sep 2014 13:57:00 GMT

←Older revision		Revision as of 13:57, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1o60.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of KDO-8-phosphate synthase==
		+	<StructureSection load='1o60' size='340' side='right' caption='[[1o60]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O60 FirstGlance]. <br>
		+	</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><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">KDSA, HI1557 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] </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=1o60 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o60 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o60 RCSB], [http://www.ebi.ac.uk/pdbsum/1o60 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/o6/1o60_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_1o60\| PDB=1o60 \| 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 ~~KDO-8-phosphate synthase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16021622}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1o60]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Haemophilus_influenzae Haemophilus influenzae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA].~~	+

	==See Also==		==See Also==
-	*[[~~Aldolase~~\|~~Aldolase~~]]	+	*[[Kdo-8-phosphate synthase\|Kdo-8-phosphate synthase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016021622<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: 3-deoxy-8-phosphooctulonate synthase]]		[[Category: 3-deoxy-8-phosphooctulonate synthase]]
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]

OCA at 12:09, 20 October 2012

OCA — Sat, 20 Oct 2012 12:09:17 GMT

←Older revision		Revision as of 12:09, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1o60]] is a 4 chain structure ~~of [[Aldolase]]~~ with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA].	+	[[1o60]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA].

	==See Also==		==See Also==

OCA: Protected "1o60" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 07:47:25 GMT

Protected "1o60" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:47, 26 July 2012

OCA at 07:47, 26 July 2012

OCA — Thu, 26 Jul 2012 07:47:23 GMT

←Older revision		Revision as of 07:47, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1o60.png\|left\|200px]]		[[Image:1o60.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1o60", 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_1o60\| PDB=1o60 \| SCENE= }}		{{STRUCTURE_1o60\| PDB=1o60 \| SCENE= }}

	===Crystal structure of KDO-8-phosphate synthase===		===Crystal structure of KDO-8-phosphate synthase===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16021622}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16021622 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16021622}}		{{ABSTRACT_PUBMED_16021622}}

	==About this Structure==		==About this Structure==
-	~~1O60~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA].	+	[[1o60]] is a 4 chain structure of [[Aldolase]] with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O60 OCA].
		+
		+	==See Also==
		+	*[[Aldolase\|Aldolase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16021622~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016021622</ref><references group="xtra"/>
	[[Category: 3-deoxy-8-phosphooctulonate synthase]]		[[Category: 3-deoxy-8-phosphooctulonate synthase]]
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: GenomiX, Structural.]]		[[Category: GenomiX, Structural.]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-		+	[[Category: Transferase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 05:19:07 2009''~~	+