2kpc - Revision history

OCA at 12:51, 20 December 2023

2023-12-20T12:51:37Z

← Older revision		Revision as of 12:51, 20 December 2023
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	==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==		==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==
	<StructureSection load='2kpc' size='340' side='right'caption='[[2kpc~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>		<StructureSection load='2kpc' size='340' side='right'caption='[[2kpc]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'>[[2kpd\|2kpd]]</div~~></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [https://pdbe.org/2kpc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [https://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [https://pdbe.org/2kpc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [https://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Dyubankova, N]]		[[Category: Dyubankova N]]
	[[Category: Herdewijn, P]]		[[Category: Herdewijn P]]
	[[Category: Jones, R]]		[[Category: Jones R]]
	[[Category: Lescrinier, E]]		[[Category: Lescrinier E]]
	[[Category: Nauwelaerts, K]]		[[Category: Nauwelaerts K]]
	~~[[Category: 3'-terminal loop]]~~
	~~[[Category: Genome]]~~
	~~[[Category: Rna]]~~
	~~[[Category: Yellow fever virus~~]]

OCA at 07:35, 2 February 2022

2022-02-02T07:35:24Z

← Older revision		Revision as of 07:35, 2 February 2022
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	<StructureSection load='2kpc' size='340' side='right'caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kpc' size='340' side='right'caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2KPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2kpd\|2kpd]]</div></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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [~~http~~://pdbe.org/2kpc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [https://pdbe.org/2kpc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [https://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:34, 29 April 2020

2020-04-29T07:34:39Z

← Older revision		Revision as of 07:34, 29 April 2020
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	==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==		==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==
	<StructureSection load='2kpc' size='340' side='right' caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kpc' size='340' side='right'caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2KPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://pdbe.org/2kpc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc 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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://pdbe.org/2kpc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Dyubankova, N]]		[[Category: Dyubankova, N]]
	[[Category: Herdewijn, P]]		[[Category: Herdewijn, P]]

OCA at 08:22, 25 July 2018

2018-07-25T08:22:48Z

← Older revision		Revision as of 08:22, 25 July 2018
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	==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==		==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==
	<StructureSection load='2kpc' size='340' side='right' caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kpc' size='340' side='right' caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
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	<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://pdbe.org/2kpc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc 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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://pdbe.org/2kpc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2kpc ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:45, 12 September 2015

2015-09-12T01:45:47Z

← Older revision		Revision as of 01:45, 12 September 2015
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	<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc 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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://pdbe.org/2kpc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 2kpc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:57, 19 January 2015

2015-01-19T16:57:18Z

← Older revision		Revision as of 16:57, 19 January 2015
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Dyubankova, N.]]		[[Category: Dyubankova, N]]
	[[Category: Herdewijn, P.]]		[[Category: Herdewijn, P]]
	[[Category: Jones, R.]]		[[Category: Jones, R]]
	[[Category: Lescrinier, E.]]		[[Category: Lescrinier, E]]
	[[Category: Nauwelaerts, K.]]		[[Category: Nauwelaerts, K]]
	[[Category: 3'-terminal loop]]		[[Category: 3'-terminal loop]]
	[[Category: Genome]]		[[Category: Genome]]
	[[Category: Rna]]		[[Category: Rna]]
	[[Category: Yellow fever virus]]		[[Category: Yellow fever virus]]

OCA at 15:31, 12 October 2014

2014-10-12T15:31:47Z

← Older revision		Revision as of 15:31, 12 October 2014
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	[[~~Image~~:~~2kpc~~.~~png~~\|~~left~~\|~~200px~~]]		==Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV==
			<StructureSection load='2kpc' size='340' side='right' caption='[[2kpc]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KPC FirstGlance]. <br>
			</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kpd\|2kpd]]</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=2kpc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kpc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kpc RCSB], [http://www.ebi.ac.uk/pdbsum/2kpc PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			To what extent small differences in RNA sequences (mutations) can have a profound impact on biology remains an intriguing question. This effect can be studied by using untranslated RNA regions as a model. We have studied the influence of mutations on the structure of an RNA hairpin that occurs in the 3'-untranslated region (UTR) of Flaviviridae, and is known to have a large impact on the vector dependency of flaviviruses. Three related RNA sequences were studied by NMR spectroscopy. The selected sequences represent each one of the three clusters in the flavivirus genes (mosquito-borne, tick-borne, and no-known-vector viruses). A new strategy was used to obtain chemical shift signatures of carbonyl atoms in unlabeled uridine nucleobases to characterize their involvement in hydrogen bonding. Clear differences occur in the structures and stacking pattern of the three RNA hairpins. The observed differences cannot be predicted based on sequence analysis. A different biology can be correlated with a different RNA tertiary structure. The underlying biological mechanism, however, remains to be studied.

	~~{{STRUCTURE_2kpc\| PDB=2kpc \| SCENE= }}~~		Structure Determination of the Top-Loop of the Conserved 3'-Terminal Secondary Structure in the Genome of Flaviviruses.,Lescrinier E, Dyubankova N, Nauwelaerts K, Jones R, Herdewijn P Chembiochem. 2010 Jun 10. PMID:20540055<ref>PMID:20540055</ref>

	~~===Structure determination~~ of the ~~top-loop of the conserved 3 terminal secondary structure in the genome of YFV===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_20540055}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2kpc]] is a 1 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=2KPC OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:020540055<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Dyubankova, N.]]		[[Category: Dyubankova, N.]]
	[[Category: Herdewijn, P.]]		[[Category: Herdewijn, P.]]

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

2013-01-07T14:34:24Z

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

← Older revision	Revision as of 14:34, 7 January 2013
(No difference)

OCA at 14:34, 7 January 2013

2013-01-07T14:34:22Z

← Older revision		Revision as of 14:34, 7 January 2013
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	~~{{Seed}}~~
	[[Image:2kpc.png\|left\|200px]]		[[Image:2kpc.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2kpc", 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_2kpc\| PDB=2kpc \| SCENE= }}		{{STRUCTURE_2kpc\| PDB=2kpc \| SCENE= }}

	===Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV===		===Structure determination of the top-loop of the conserved 3 terminal secondary structure in the genome of YFV===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_20540055}}, adds the Publication Abstract to the page~~
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	~~-->~~
	{{ABSTRACT_PUBMED_20540055}}		{{ABSTRACT_PUBMED_20540055}}

	==About this Structure==		==About this Structure==
	~~2KPC~~ is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA].		[[2kpc]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KPC OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~20540055~~</ref><references group="xtra"/>		<ref group="xtra">PMID:020540055</ref><references group="xtra"/>
	[[Category: Dyubankova, N.]]		[[Category: Dyubankova, N.]]
	[[Category: Herdewijn, P.]]		[[Category: Herdewijn, P.]]
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	[[Category: Rna]]		[[Category: Rna]]
	[[Category: Yellow fever virus]]		[[Category: Yellow fever virus]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:57:03 2010''~~

OCA at 11:50, 14 July 2010

2010-07-14T11:50:55Z

← Older revision		Revision as of 11:50, 14 July 2010
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	{{Seed}}		{{Seed}}
	[[Image:2kpc.~~jpg~~\|left\|200px]]		[[Image:2kpc.png\|left\|200px]]

	<!--		<!--
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	[[Category: Yellow fever virus]]		[[Category: Yellow fever virus]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 30 13~~:43:55 2010''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:57:03 2010''