2l6q - Revision history

OCA at 06:53, 1 May 2024

2024-05-01T06:53:55Z

←Older revision		Revision as of 06:53, 1 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>		<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q 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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/HCP_LAMBD HCP_LAMBD] Plays a role in morphogenesis of the virion head after genome packaging. Presumably interacts with the portal vertex to stabilize the packaged DNA within the head after packaging. Probably binds to the head-tail connector protein FII.<ref>PMID:14569303</ref> <ref>PMID:20660769</ref> <ref>PMID:5022189</ref>		[https://www.uniprot.org/uniprot/HCP_LAMBD HCP_LAMBD] Plays a role in morphogenesis of the virion head after genome packaging. Presumably interacts with the portal vertex to stabilize the packaged DNA within the head after packaging. Probably binds to the head-tail connector protein FII.<ref>PMID:14569303</ref> <ref>PMID:20660769</ref> <ref>PMID:5022189</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	GpW is a 68-residue protein from bacteriophage lambda that participates in virus head morphogenesis. Previous NMR studies revealed a novel alpha+beta fold for this protein. Recent experiments have shown that gpW folds in microseconds by crossing a marginal free energy barrier (i.e., downhill folding). These features make gpW a highly desirable target for further experimental and computational folding studies. As a step in that direction, we have re-determined the high-resolution structure of gpW by multidimensional NMR on a construct that eliminates the purification tags and unstructured C-terminal tail present in the prior study. In contrast to the previous work, we have obtained a full manual assignment and calculated the structure using only unambiguous distance restraints. This new structure confirms the alpha+beta topology, but reveals important differences in tertiary packing. Namely, the two alpha-helices are rotated along their main axis to form a leucine zipper. The beta-hairpin is orthogonal to the helical interface rather than parallel, displaying most tertiary contacts through strand 1. There also are differences in secondary structure: longer and less curved helices and a hairpin that now shows the typical right-hand twist. Molecular dynamics simulations starting from both gpW structures, and calculations with CS-Rosetta, all converge to our gpW structure. This confirms that the original structure has strange tertiary packing and strained secondary structure. A comparison of NMR datasets suggests that the problems were mainly caused by incomplete chemical shift assignments, mistakes in NOE assignment and the inclusion of ambiguous distance restraints during the automated procedure used in the original study. The new gpW corrects these problems, providing the appropriate structural reference for future work. Furthermore, our results are a cautionary tale against the inclusion of ambiguous experimental information in the determination of protein structures.
-
-	Revisiting the NMR structure of the ultrafast downhill folding protein gpW from bacteriophage lambda.,Sborgi L, Verma A, Munoz V, de Alba E PLoS One. 2011;6(11):e26409. doi: 10.1371/journal.pone.0026409. Epub 2011 Nov 4. PMID:22087227<ref>PMID:22087227</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2l6q" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:24, 18 January 2023

2023-01-18T08:24:20Z

←Older revision		Revision as of 08:24, 18 January 2023
Line 1:		Line 1:

	==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==		==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
-	<StructureSection load='2l6q' size='340' side='right'caption='[[2l6q~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2l6q' size='340' side='right'caption='[[2l6q]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bacteriophage_lambda Bacteriophage lambda~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q 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;'>[[2l6r\|2l6r]]</div></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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/HCP_LAMBD HCP_LAMBD] Plays a role in morphogenesis of the virion head after genome packaging. Presumably interacts with the portal vertex to stabilize the packaged DNA within the head after packaging. Probably binds to the head-tail connector protein FII.<ref>PMID:14569303</ref> <ref>PMID:20660769</ref> <ref>PMID:5022189</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacteriophage lambda~~]]	+	[[Category: Escherichia virus Lambda]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Alba, E de]]~~	+	[[Category: Munoz V]]
-	[[Category: Munoz, V]]	+	[[Category: Sborgi L]]
-	[[Category: Sborgi, L]]	+	[[Category: Verma A]]
-	[[Category: Verma, A]]	+	[[Category: De Alba E]]
-	[[Category: ~~Downhill protein folding]]~~	+
-	~~[[Category: Fast protein folding]]~~	+
-	~~[[Category: Folding simulation]]~~	+
-	~~[[Category: Gpw]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 07:37, 14 April 2021

2021-04-14T07:37:28Z

←Older revision		Revision as of 07:37, 14 April 2021
Line 1:		Line 1:

	==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==		==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
-	<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2l6q' size='340' side='right'caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</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;'>[[2l6r\|2l6r]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [~~http~~://pdbe.org/2l6q PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q 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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Bacteriophage lambda]]		[[Category: Bacteriophage lambda]]
		+	[[Category: Large Structures]]
	[[Category: Alba, E de]]		[[Category: Alba, E de]]
	[[Category: Munoz, V]]		[[Category: Munoz, V]]

OCA at 19:20, 1 August 2018

2018-08-01T19:20:05Z

←Older revision		Revision as of 19:20, 1 August 2018
Line 1:		Line 1:
		+
	==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==		==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
	<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://pdbe.org/2l6q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q 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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://pdbe.org/2l6q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:48, 10 September 2015

2015-09-10T06:48:07Z

←Older revision		Revision as of 06:48, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_lambda Enterobacteria phage~~ lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 ~~Enterobacteria phage~~ lambda])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q 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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://pdbe.org/2l6q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 15:
	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 2l6q" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage~~ lambda]]	+	[[Category: Bacteriophage lambda]]
	[[Category: Alba, E de]]		[[Category: Alba, E de]]
	[[Category: Munoz, V]]		[[Category: Munoz, V]]

OCA at 08:53, 25 January 2015

2015-01-25T08:53:50Z

←Older revision		Revision as of 08:53, 25 January 2015
Line 20:		Line 20:
	</StructureSection>		</StructureSection>
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
-	[[Category: Alba, E de.]]	+	[[Category: Alba, E de]]
-	[[Category: Munoz, V.]]	+	[[Category: Munoz, V]]
-	[[Category: Sborgi, L.]]	+	[[Category: Sborgi, L]]
-	[[Category: Verma, A.]]	+	[[Category: Verma, A]]
	[[Category: Downhill protein folding]]		[[Category: Downhill protein folding]]
	[[Category: Fast protein folding]]		[[Category: Fast protein folding]]

OCA at 11:51, 29 October 2014

2014-10-29T11:51:00Z

←Older revision		Revision as of 11:51, 29 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2l6q.~~png~~\|~~left~~\|~~200px~~]]	+	==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
		+	<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2l6r\|2l6r]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Enterobacteria phage lambda])</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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	GpW is a 68-residue protein from bacteriophage lambda that participates in virus head morphogenesis. Previous NMR studies revealed a novel alpha+beta fold for this protein. Recent experiments have shown that gpW folds in microseconds by crossing a marginal free energy barrier (i.e., downhill folding). These features make gpW a highly desirable target for further experimental and computational folding studies. As a step in that direction, we have re-determined the high-resolution structure of gpW by multidimensional NMR on a construct that eliminates the purification tags and unstructured C-terminal tail present in the prior study. In contrast to the previous work, we have obtained a full manual assignment and calculated the structure using only unambiguous distance restraints. This new structure confirms the alpha+beta topology, but reveals important differences in tertiary packing. Namely, the two alpha-helices are rotated along their main axis to form a leucine zipper. The beta-hairpin is orthogonal to the helical interface rather than parallel, displaying most tertiary contacts through strand 1. There also are differences in secondary structure: longer and less curved helices and a hairpin that now shows the typical right-hand twist. Molecular dynamics simulations starting from both gpW structures, and calculations with CS-Rosetta, all converge to our gpW structure. This confirms that the original structure has strange tertiary packing and strained secondary structure. A comparison of NMR datasets suggests that the problems were mainly caused by incomplete chemical shift assignments, mistakes in NOE assignment and the inclusion of ambiguous distance restraints during the automated procedure used in the original study. The new gpW corrects these problems, providing the appropriate structural reference for future work. Furthermore, our results are a cautionary tale against the inclusion of ambiguous experimental information in the determination of protein structures.

-	~~{{STRUCTURE_2l6q\| PDB=2l6q \| SCENE= }}~~	+	Revisiting the NMR structure of the ultrafast downhill folding protein gpW from bacteriophage lambda.,Sborgi L, Verma A, Munoz V, de Alba E PLoS One. 2011;6(11):e26409. doi: 10.1371/journal.pone.0026409. Epub 2011 Nov 4. PMID:22087227<ref>PMID:22087227</ref>

-	~~===New high resolution NMR structure~~ of ~~gpW (W protein~~ of ~~bacteriophage lambda) at neutral pH===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22087227}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[2l6q]] is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA].~~	+	</StructureSection>
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
	[[Category: Alba, E de.]]		[[Category: Alba, E de.]]

OCA at 11:33, 23 January 2013

2013-01-23T11:33:06Z

←Older revision		Revision as of 11:33, 23 January 2013
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	[[Image:2l6q.png\|left\|200px]]		[[Image:2l6q.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2l6q", 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_2l6q\| PDB=2l6q \| SCENE= }}		{{STRUCTURE_2l6q\| PDB=2l6q \| SCENE= }}

	===New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH===		===New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH===

		+	{{ABSTRACT_PUBMED_22087227}}

	==About this Structure==		==About this Structure==

OCA at 05:41, 28 December 2011

2011-12-28T05:41:30Z

←Older revision		Revision as of 05:41, 28 December 2011
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-	[[Image:2l6q.~~jpg~~\|left\|200px]]	+	[[Image:2l6q.png\|left\|200px]]

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OCA at 12:23, 16 November 2011

2011-11-16T12:23:16Z

←Older revision		Revision as of 12:23, 16 November 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:2l6q.jpg\|left\|200px]]

-	The ~~entry 2l6q~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2l6q", 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_2l6q\| PDB=2l6q \| SCENE= }}

-	~~Authors: Sborgi, L., Verma, A., Munoz, V., de Alba, E.~~	+	===New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH===

-	~~Description: New high resolution NMR~~ structure ~~of gpW (W protein of bacteriophage~~ lambda~~) at neutral pH~~	+
		+	==About this Structure==
		+	[[2l6q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA].
		+	[[Category: Enterobacteria phage lambda]]
		+	[[Category: Alba, E de.]]
		+	[[Category: Munoz, V.]]
		+	[[Category: Sborgi, L.]]
		+	[[Category: Verma, A.]]
		+	[[Category: Downhill protein folding]]
		+	[[Category: Fast protein folding]]
		+	[[Category: Folding simulation]]
		+	[[Category: Gpw]]
		+	[[Category: Viral protein]]