1ybd - Revision history

OCA at 08:01, 15 May 2024

2024-05-15T08:01:59Z

←Older revision		Revision as of 08:01, 15 May 2024
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	<StructureSection load='1ybd' size='340' side='right'caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='1ybd' size='340' side='right'caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"diplokokkus_intracellularis_meningitidis"_(sic)_weichselbaum_1887 "diplokokkus intracellularis~~ meningitidis~~" (sic) weichselbaum 1887~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1YBD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YBD FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.6Å</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=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])~~</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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [https://pdbe.org/1ybd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [https://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ybd ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [~~http~~://pdbe.org/1ybd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ybd ProSAT], [~~http~~://www.topsan.org/Proteins/NYSGXRC/1ybd TOPSAN]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PYRH_NEIMB PYRH_NEIMB]] Catalyzes the reversible phosphorylation of UMP to UDP.<ref>PMID:17210578</ref>	+	[https://www.uniprot.org/uniprot/PYRH_NEIMB PYRH_NEIMB] Catalyzes the reversible phosphorylation of UMP to UDP.<ref>PMID:17210578</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Burley, S K~~]]	+	[[Category: Neisseria meningitidis]]
-	[[Category: ~~Kumaran, D~~]]	+	[[Category: Burley SK]]
-	[[Category: ~~Structural genomic~~]]	+	[[Category: Kumaran D]]
-	[[Category: Swaminathan, S]]	+	[[Category: Swaminathan S]]
-	~~[[Category: Alpha/beta/alpha fold]]~~	+
-	~~[[Category: Hexamer]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: T1843]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:42, 20 January 2021

2021-01-20T08:42:57Z

←Older revision		Revision as of 08:42, 20 January 2021
Line 1:		Line 1:

	==Crystal structure analysis of uridylate kinase from Neisseria meningitidis==		==Crystal structure analysis of uridylate kinase from Neisseria meningitidis==
-	<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='1ybd' size='340' side='right'caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplokokkus_intracellularis_meningitidis"_(sic)_weichselbaum_1887 "diplokokkus intracellularis meningitidis" (sic) weichselbaum 1887]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YBD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplokokkus_intracellularis_meningitidis"_(sic)_weichselbaum_1887 "diplokokkus intracellularis meningitidis" (sic) weichselbaum 1887]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1YBD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])</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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://pdbe.org/1ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ybd ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://pdbe.org/1ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ybd ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1ybd TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Burley, S K]]		[[Category: Burley, S K]]
	[[Category: Kumaran, D]]		[[Category: Kumaran, D]]

OCA at 06:59, 25 April 2018

2018-04-25T06:59:48Z

←Older revision		Revision as of 06:59, 25 April 2018
Line 1:		Line 1:
		+
	==Crystal structure analysis of uridylate kinase from Neisseria meningitidis==		==Crystal structure analysis of uridylate kinase from Neisseria meningitidis==
	<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' 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">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])</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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://pdbe.org/1ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://pdbe.org/1ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ybd ProSAT], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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/yb/1ybd_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yb/1ybd_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>
	</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=1ybd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>

OCA at 00:11, 12 September 2015

2015-09-12T00:11:09Z

←Older revision		Revision as of 00:11, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Neisseria_meningitidis Neisseria~~ meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YBD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplokokkus_intracellularis_meningitidis"_(sic)_weichselbaum_1887 "diplokokkus intracellularis meningitidis" (sic) weichselbaum 1887]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YBD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 ~~Neisseria~~ meningitidis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 "Diplokokkus intracellularis meningitidis" (sic) Weichselbaum 1887])</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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://pdbe.org/1ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Neisseria meningitidis]]
	[[Category: Burley, S K]]		[[Category: Burley, S K]]
	[[Category: Kumaran, D]]		[[Category: Kumaran, D]]

OCA at 21:14, 25 December 2014

2014-12-25T21:14:23Z

←Older revision		Revision as of 21:14, 25 December 2014
Line 8:		Line 8:
	<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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PYRH_NEIMB PYRH_NEIMB]] Catalyzes the reversible phosphorylation of UMP to UDP.<ref>PMID:17210578</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 23:
	==See Also==		==See Also==
	*[[Uridylate kinase\|Uridylate kinase]]		*[[Uridylate kinase\|Uridylate kinase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 12:57, 6 November 2014

2014-11-06T12:57:50Z

←Older revision		Revision as of 12:57, 6 November 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YBD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YBD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 Neisseria meningitidis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 Neisseria meningitidis])</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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd 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 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Neisseria meningitidis]]		[[Category: Neisseria meningitidis]]
-	[[Category: Burley, S K.]]	+	[[Category: Burley, S K]]
-	[[Category: Kumaran, D.]]	+	[[Category: Kumaran, D]]
-	[[Category: ~~NYSGXRC, New York SGX Research Center for~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Swaminathan, S.]]	+	[[Category: Swaminathan, S]]
	[[Category: Alpha/beta/alpha fold]]		[[Category: Alpha/beta/alpha fold]]
	[[Category: Hexamer]]		[[Category: Hexamer]]
	[[Category: Kinase]]		[[Category: Kinase]]
-	[[Category: New ~~york sgx research center~~ for ~~structural genomic]]~~	+	[[Category: NYSGXRC, New York SGX Research Center for Structural Genomics]]
-	~~[[Category: Nysgxrc~~]]	+	[[Category: PSI, Protein structure initiative]]
-	[[Category: Protein structure initiative]]	+
-	~~[[Category: Psi]]~~	+
-	~~[[Category: Structural genomic~~]]	+
	[[Category: T1843]]		[[Category: T1843]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 22:33, 28 September 2014

2014-09-28T22:33:05Z

←Older revision		Revision as of 22:33, 28 September 2014
Line 1:		Line 1:
-	~~[[Image:1ybd.png\|left\|200px]]~~	+	==Crystal structure analysis of uridylate kinase from Neisseria meningitidis==
-		+	<StructureSection load='1ybd' size='340' side='right' caption='[[1ybd]], [[Resolution\|resolution]] 2.60Å' scene=''>
-	~~{{STRUCTURE_1ybd\| PDB=1ybd \| SCENE= }}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YBD FirstGlance]. <br>
-	===Crystal structure analysis of uridylate kinase from Neisseria meningitidis===	+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">pyrH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=487 Neisseria meningitidis])</td></tr>
-	==~~About this Structure~~==	+	<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=1ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ybd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ybd RCSB], [http://www.ebi.ac.uk/pdbsum/1ybd PDBsum], [http://www.topsan.org/Proteins/NYSGXRC/1ybd TOPSAN]</span></td></tr>
-	[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA].	+	<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/yb/1ybd_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>

	==See Also==		==See Also==
	*[[Uridylate kinase\|Uridylate kinase]]		*[[Uridylate kinase\|Uridylate kinase]]
		+	__TOC__
		+	</StructureSection>
	[[Category: Neisseria meningitidis]]		[[Category: Neisseria meningitidis]]
	[[Category: Burley, S K.]]		[[Category: Burley, S K.]]

OCA at 21:44, 20 October 2012

2012-10-20T21:44:09Z

←Older revision		Revision as of 21:44, 20 October 2012
Line 7:		Line 7:

	==About this Structure==		==About this Structure==
-	[[1ybd]] is a 3 chain structure ~~of [[Uridylate kinase]]~~ with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA].	+	[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA].

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

OCA at 14:07, 27 July 2012

2012-07-27T14:07:17Z

←Older revision		Revision as of 14:07, 27 July 2012
Line 1:		Line 1:
	[[Image:1ybd.png\|left\|200px]]		[[Image:1ybd.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1ybd", 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_1ybd\| PDB=1ybd \| SCENE= }}		{{STRUCTURE_1ybd\| PDB=1ybd \| SCENE= }}

Line 13:		Line 7:

	==About this Structure==		==About this Structure==
-	[[1ybd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA].	+	[[1ybd]] is a 3 chain structure of [[Uridylate kinase]] with sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YBD OCA].
		+
		+	==See Also==
		+	*[[Uridylate kinase\|Uridylate kinase]]
	[[Category: Neisseria meningitidis]]		[[Category: Neisseria meningitidis]]
	[[Category: Burley, S K.]]		[[Category: Burley, S K.]]

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

2010-12-29T17:50:52Z

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

←Older revision

Revision as of 17:50, 29 December 2010