2x8n - Revision history

OCA at 10:05, 14 June 2023

OCA — Wed, 14 Jun 2023 10:05:42 GMT

←Older revision		Revision as of 10:05, 14 June 2023
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	==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==		==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==
-	<StructureSection load='2x8n' size='340' side='right'caption='[[2x8n~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2x8n' size='340' side='right'caption='[[2x8n]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Chrvo Chrvo~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X8N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Chromobacterium_violaceum_ATCC_12472 Chromobacterium violaceum ATCC 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [https://pdbe.org/2x8n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [https://www.ebi.ac.uk/pdbsum/2x8n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x8n ProSAT]</span></td></tr>		</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [https://pdbe.org/2x8n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [https://www.ebi.ac.uk/pdbsum/2x8n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x8n ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q7NZQ8_CHRVO Q7NZQ8_CHRVO]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 16:		Line 18:
	</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=2x8n 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=2x8n ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The quality of protein structures determined by nuclear magnetic resonance (NMR) spectroscopy is contingent on the number and quality of experimentally-derived resonance assignments, distance and angular restraints. Two key features of protein NMR data have posed challenges for the routine and automated structure determination of small to medium sized proteins; (1) spectral resolution - especially of crowded nuclear Overhauser effect spectroscopy (NOESY) spectra, and (2) the reliance on a continuous network of weak scalar couplings as part of most common assignment protocols. In order to facilitate NMR structure determination, we developed a semi-automated strategy that utilizes non-uniform sampling (NUS) and multidimensional decomposition (MDD) for optimal data collection and processing of selected, high resolution multidimensional NMR experiments, combined it with an ABACUS protocol for sequential and side chain resonance assignments, and streamlined this procedure to execute structure and refinement calculations in CYANA and CNS, respectively. Two graphical user interfaces (GUIs) were developed to facilitate efficient analysis and compilation of the data and to guide automated structure determination. This integrated method was implemented and refined on over 30 high quality structures of proteins ranging from 5.5 to 16.5 kDa in size.
-
-	A novel strategy for NMR resonance assignment and protein structure determination.,Lemak A, Gutmanas A, Chitayat S, Karra M, Fares C, Sunnerhagen M, Arrowsmith CH J Biomol NMR. 2011 Jan;49(1):27-38. Epub 2010 Dec 14. PMID:21161328<ref>PMID:21161328</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2x8n" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chrvo~~]]	+	[[Category: Chromobacterium violaceum ATCC 12472]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arrowsmith~~, C H~~]]	+	[[Category: Arrowsmith CH]]
-	[[Category: Fares, C]]	+	[[Category: Fares C]]
-	[[Category: Gutmanas, A]]	+	[[Category: Gutmanas A]]
-	[[Category: Lemak, A]]	+	[[Category: Lemak A]]
-	~~[[Category: Structural genomic]]~~	+	[[Category: Semesi A]]
-	~~[[Category: OCSP, Ontario Centre for Structural Proteomics~~]]	+	[[Category: Yee A]]
-	[[Category: Semesi, A]]	+
-	[[Category: Yee, A]]	+
-	~~[[Category: Abacus]]~~	+
-	~~[[Category: Fragment monte carlo]]~~	+
-	~~[[Category: Multidimensional decomposition]]~~	+
-	~~[[Category: Nesg]]~~	+
-	~~[[Category: Non-uniform sampling]]~~	+
-	~~[[Category: Ocsp]]~~	+
-	~~[[Category: Ontario centre for structural proteomic~~]]	+

OCA at 08:37, 10 November 2021

OCA — Wed, 10 Nov 2021 08:37:13 GMT

←Older revision		Revision as of 08:37, 10 November 2021
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	<StructureSection load='2x8n' size='340' side='right'caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2x8n' size='340' side='right'caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2X8N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
-	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [~~http~~://pdbe.org/2x8n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2x8n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2x8n ProSAT]</span></td></tr>	+	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [https://pdbe.org/2x8n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [https://www.ebi.ac.uk/pdbsum/2x8n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x8n ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 13:35, 25 December 2019

OCA — Wed, 25 Dec 2019 13:35:20 GMT

←Older revision		Revision as of 13:35, 25 December 2019
Line 1:		Line 1:

	==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==		==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==
-	<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2x8n' size='340' side='right'caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>		<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
Line 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Chrvo]]		[[Category: Chrvo]]
		+	[[Category: Large Structures]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Fares, C]]		[[Category: Fares, C]]

OCA at 07:31, 17 January 2018

OCA — Wed, 17 Jan 2018 07:31:25 GMT

←Older revision		Revision as of 07:31, 17 January 2018
Line 10:		Line 10:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/x8/2x8n_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/x8/2x8n_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 17:23, 9 March 2017

OCA — Thu, 09 Mar 2017 17:23:51 GMT

←Older revision		Revision as of 17:23, 9 March 2017
Line 1:		Line 1:
		+
	==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==		==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==
	<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>		<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
-	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n PDBsum]</span></td></tr>	+	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://pdbe.org/2x8n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2x8n ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 14:
	<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=2x8n ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 23:		Line 24:
	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 2x8n" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:25, 6 May 2015

OCA — Wed, 06 May 2015 07:25:11 GMT

←Older revision		Revision as of 07:25, 6 May 2015
Line 1:		Line 1:
-	==~~SOLUTION~~ NMR ~~STRUCTURE OF UNCHARACTERIZED PROTEIN~~ CV0863 ~~FROM CHROMOBACTERIUM VIOLACEUM~~. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) ~~TARGET CVT3~~. OCSP ~~TARGET~~ CV0863.==	+	==Solution NMR structure of uncharacterized protein CV0863 from Chromobacterium violaceum. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) target CvT3. OCSP target CV0863.==
	<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrvo Chrvo]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n PDBsum]</span></td></tr>		</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n PDBsum]</span></td></tr>
	</table>		</table>
Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chromobacterium violaceum atcc 12472~~]]	+	[[Category: Chrvo]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
-	[[Category: Structural genomic]]
	[[Category: Fares, C]]		[[Category: Fares, C]]
	[[Category: Gutmanas, A]]		[[Category: Gutmanas, A]]
	[[Category: Lemak, A]]		[[Category: Lemak, A]]
-	[[Category: ~~Proteomics~~, Ontario Centre for Structural]]	+	[[Category: Structural genomic]]
		+	[[Category: OCSP, Ontario Centre for Structural Proteomics]]
	[[Category: Semesi, A]]		[[Category: Semesi, A]]
	[[Category: Yee, A]]		[[Category: Yee, A]]

OCA at 22:38, 3 January 2015

OCA — Sat, 03 Jan 2015 22:38:27 GMT

←Older revision		Revision as of 22:38, 3 January 2015
Line 2:		Line 2:
	<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. ~~<br>~~	+	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2X8N FirstGlance]. <br>
-	~~</td></tr><tr><td class="sblockLbl">~~<b>~~Activity:~~</b>~~</td><td class="sblockDat"><span class='plainlinks'>~~[http://en.~~wikipedia~~.~~org~~/~~wiki/Glucokinase Glucokinase], with EC number [http://www.brenda~~-~~enzymes.info~~/~~php~~/~~result_flat~~.~~php4~~?~~ecno~~=~~2.7.1.2 2.7.1.2~~] <~~/span~~></td></tr>	+	</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n PDBsum]</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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n 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 22:		Line 21:
	A novel strategy for NMR resonance assignment and protein structure determination.,Lemak A, Gutmanas A, Chitayat S, Karra M, Fares C, Sunnerhagen M, Arrowsmith CH J Biomol NMR. 2011 Jan;49(1):27-38. Epub 2010 Dec 14. PMID:21161328<ref>PMID:21161328</ref>		A novel strategy for NMR resonance assignment and protein structure determination.,Lemak A, Gutmanas A, Chitayat S, Karra M, Fares C, Sunnerhagen M, Arrowsmith CH J Biomol NMR. 2011 Jan;49(1):27-38. Epub 2010 Dec 14. PMID:21161328<ref>PMID:21161328</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 29:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Chromobacterium violaceum atcc 12472]]		[[Category: Chromobacterium violaceum atcc 12472]]
-	[[Category: Arrowsmith, C H.]]	+	[[Category: Arrowsmith, C H]]
-	[[Category: ~~Consortium, Northeast~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Fares, C.]]	+	[[Category: Fares, C]]
-	[[Category: Gutmanas, A.]]	+	[[Category: Gutmanas, A]]
-	[[Category: Lemak, A.]]	+	[[Category: Lemak, A]]
-	[[Category: Proteomics, Ontario Centre for Structural.]]	+	[[Category: Proteomics, Ontario Centre for Structural]]
-	[[Category: Semesi, A.]]	+	[[Category: Semesi, A]]
-	[[Category: Yee, A.]]	+	[[Category: Yee, A]]
	[[Category: Abacus]]		[[Category: Abacus]]
	[[Category: Fragment monte carlo]]		[[Category: Fragment monte carlo]]
Line 42:		Line 41:
	[[Category: Nesg]]		[[Category: Nesg]]
	[[Category: Non-uniform sampling]]		[[Category: Non-uniform sampling]]
-	[[Category: Northeast structural genomics consortium]]
	[[Category: Ocsp]]		[[Category: Ocsp]]
	[[Category: Ontario centre for structural proteomic]]		[[Category: Ontario centre for structural proteomic]]
-	[[Category: Structural genomic]]

OCA at 07:43, 14 May 2014

OCA — Wed, 14 May 2014 07:43:13 GMT

←Older revision		Revision as of 07:43, 14 May 2014
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-	[[~~Image~~:2x8n.~~png\|left~~\|200px]]	+	==SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN CV0863 FROM CHROMOBACTERIUM VIOLACEUM. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) TARGET CVT3. OCSP TARGET CV0863.==
		+	<StructureSection load='2x8n' size='340' side='right' caption='[[2x8n]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2x8n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x8n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2x8n RCSB], [http://www.ebi.ac.uk/pdbsum/2x8n 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/x8/2x8n_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 quality of protein structures determined by nuclear magnetic resonance (NMR) spectroscopy is contingent on the number and quality of experimentally-derived resonance assignments, distance and angular restraints. Two key features of protein NMR data have posed challenges for the routine and automated structure determination of small to medium sized proteins; (1) spectral resolution - especially of crowded nuclear Overhauser effect spectroscopy (NOESY) spectra, and (2) the reliance on a continuous network of weak scalar couplings as part of most common assignment protocols. In order to facilitate NMR structure determination, we developed a semi-automated strategy that utilizes non-uniform sampling (NUS) and multidimensional decomposition (MDD) for optimal data collection and processing of selected, high resolution multidimensional NMR experiments, combined it with an ABACUS protocol for sequential and side chain resonance assignments, and streamlined this procedure to execute structure and refinement calculations in CYANA and CNS, respectively. Two graphical user interfaces (GUIs) were developed to facilitate efficient analysis and compilation of the data and to guide automated structure determination. This integrated method was implemented and refined on over 30 high quality structures of proteins ranging from 5.5 to 16.5 kDa in size.

-	~~<!--~~	+	A novel strategy for NMR resonance assignment and protein structure determination.,Lemak A, Gutmanas A, Chitayat S, Karra M, Fares C, Sunnerhagen M, Arrowsmith CH J Biomol NMR. 2011 Jan;49(1):27-38. Epub 2010 Dec 14. PMID:21161328<ref>PMID:21161328</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_2x8n"~~, ~~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_2x8n\| PDB=2x8n \| SCENE= }}~~	+

-	~~===SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN CV0863 FROM CHROMOBACTERIUM VIOLACEUM. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) TARGET CVT3. OCSP TARGET CV0863.===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_21161328}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21161328 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21161328}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2x8n]] is a 1 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021161328<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Chromobacterium violaceum atcc 12472]]		[[Category: Chromobacterium violaceum atcc 12472]]
	[[Category: Arrowsmith, C H.]]		[[Category: Arrowsmith, C H.]]

OCA: Protected "2x8n" [edit=sysop:move=sysop]

OCA — Sun, 30 Oct 2011 07:26:59 GMT

Protected "2x8n" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:26, 30 October 2011

OCA at 07:26, 30 October 2011

OCA — Sun, 30 Oct 2011 07:26:57 GMT

←Older revision		Revision as of 07:26, 30 October 2011
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-	{{Seed}}
	[[Image:2x8n.png\|left\|200px]]		[[Image:2x8n.png\|left\|200px]]

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	===SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN CV0863 FROM CHROMOBACTERIUM VIOLACEUM. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) TARGET CVT3. OCSP TARGET CV0863.===		===SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN CV0863 FROM CHROMOBACTERIUM VIOLACEUM. NORTHEAST STRUCTURAL GENOMICS TARGET (NESG) TARGET CVT3. OCSP TARGET CV0863.===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21161328}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21161328 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21161328}}

	==About this Structure==		==About this Structure==
-	~~2X8N~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA].	+	[[2x8n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chromobacterium_violaceum_atcc_12472 Chromobacterium violaceum atcc 12472]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X8N OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021161328</ref><references group="xtra"/>
	[[Category: Chromobacterium violaceum atcc 12472]]		[[Category: Chromobacterium violaceum atcc 12472]]
	[[Category: Arrowsmith, C H.]]		[[Category: Arrowsmith, C H.]]
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	[[Category: Ontario centre for structural proteomic]]		[[Category: Ontario centre for structural proteomic]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 12 10:26:48 2010''