2lcb - Revision history

OCA at 06:55, 1 May 2024

OCA — Wed, 01 May 2024 06:55:07 GMT

←Older revision		Revision as of 06:55, 1 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LCB 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [https://pdbe.org/2lcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [https://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [https://pdbe.org/2lcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [https://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>		[https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Proteins are inherently plastic molecules, whose function often critically depends on excursions between different molecular conformations (conformers). However, a rigorous understanding of the relation between a protein's structure, dynamics and function remains elusive. This is because many of the conformers on its energy landscape are only transiently formed and marginally populated (less than a few per cent of the total number of molecules), so that they cannot be individually characterized by most biophysical tools. Here we study a lysozyme mutant from phage T4 that binds hydrophobic molecules and populates an excited state transiently (about 1 ms) to about 3% at 25 degrees C (ref. 5). We show that such binding occurs only via the ground state, and present the atomic-level model of the 'invisible', excited state obtained using a combined strategy of relaxation-dispersion NMR (ref. 6) and CS-Rosetta model building that rationalizes this observation. The model was tested using structure-based design calculations identifying point mutants predicted to stabilize the excited state relative to the ground state. In this way a pair of mutations were introduced, inverting the relative populations of the ground and excited states and altering function. Our results suggest a mechanism for the evolution of a protein's function by changing the delicate balance between the states on its energy landscape. More generally, they show that our approach can generate and validate models of excited protein states.
-
-	Solution structure of a minor and transiently formed state of a T4 lysozyme mutant.,Bouvignies G, Vallurupalli P, Hansen DF, Correia BE, Lange O, Bah A, Vernon RM, Dahlquist FW, Baker D, Kay LE Nature. 2011 Aug 21;477(7362):111-4. doi: 10.1038/nature10349. PMID:21857680<ref>PMID:21857680</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2lcb" style="background-color:#fffaf0;"></div>

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

OCA at 10:52, 15 February 2023

OCA — Wed, 15 Feb 2023 10:52:26 GMT

←Older revision		Revision as of 10:52, 15 February 2023
Line 1:		Line 1:

	==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==		==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==
-	<StructureSection load='2lcb' size='340' side='right'caption='[[2lcb~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2lcb' size='340' side='right'caption='[[2lcb]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bpt4 Bpt4~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LCB 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;'>[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [https://pdbe.org/2lcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [https://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [https://pdbe.org/2lcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [https://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~LYS_BPT4 LYS_BPT4~~]~~] Helps~~ to ~~release~~ the mature ~~phage~~ particles ~~from~~ the cell ~~wall by breaking~~ down the peptidoglycan.	+	[https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpt4~~]]	+	[[Category: Escherichia virus T4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Bah A]]
-	[[Category: Bah, A]]	+	[[Category: Baker D]]
-	[[Category: Baker, D]]	+	[[Category: Bouvignies G]]
-	[[Category: Bouvignies, G]]	+	[[Category: Correia B]]
-	[[Category: Correia, B]]	+	[[Category: Dahlquist FW]]
-	[[Category: Dahlquist~~, F W~~]]	+	[[Category: Hansen D]]
-	[[Category: Hansen, D]]	+	[[Category: Kay LE]]
-	[[Category: Kay~~, L E~~]]	+	[[Category: Lange O]]
-	[[Category: Lange, O]]	+	[[Category: Vallurupalli P]]
-	[[Category: Vallurupalli, P]]	+	[[Category: Vernon RM]]
-	[[Category: Vernon~~, R M]]~~	+
-	~~[[Category: Excited state]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 10:08, 12 May 2021

OCA — Wed, 12 May 2021 10:08:10 GMT

←Older revision		Revision as of 10:08, 12 May 2021
Line 1:		Line 1:

	==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==		==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==
-	<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2lcb' size='340' side='right'caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2LCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LCB FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</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;'>[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [~~http~~://pdbe.org/2lcb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [https://pdbe.org/2lcb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [https://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/LYS_BPT4 LYS_BPT4]] Helps to release the mature phage particles from the cell wall by breaking down the peptidoglycan.	+	[[https://www.uniprot.org/uniprot/LYS_BPT4 LYS_BPT4]] Helps to release the mature phage particles from the cell wall by breaking down the peptidoglycan.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Bpt4]]		[[Category: Bpt4]]
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Bah, A]]		[[Category: Bah, A]]

OCA at 20:00, 1 August 2018

OCA — Wed, 01 Aug 2018 20:00:54 GMT

←Older revision		Revision as of 20:00, 1 August 2018
Line 1:		Line 1:
		+
	==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==		==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==
	<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://pdbe.org/2lcb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://pdbe.org/2lcb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2lcb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 01:50, 12 September 2015

OCA — Sat, 12 Sep 2015 01:50:29 GMT

←Older revision		Revision as of 01:50, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_t4 Enterobacteria phage t4~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LCB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LCB FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 ~~Enterobacteria phage T4~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://pdbe.org/2lcb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	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 2lcb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage t4~~]]	+	[[Category: Bpt4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Bah, A]]		[[Category: Bah, A]]

OCA at 22:15, 25 December 2014

OCA — Thu, 25 Dec 2014 22:15:55 GMT

←Older revision		Revision as of 22:15, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LCB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LCB FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb 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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYS_BPT4 LYS_BPT4]] Helps to release the mature phage particles from the cell wall by breaking down the peptidoglycan.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 27:
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
-	[[Category: Bah, A.]]	+	[[Category: Bah, A]]
-	[[Category: Baker, D.]]	+	[[Category: Baker, D]]
-	[[Category: Bouvignies, G.]]	+	[[Category: Bouvignies, G]]
-	[[Category: Correia, B.]]	+	[[Category: Correia, B]]
-	[[Category: Dahlquist, F W.]]	+	[[Category: Dahlquist, F W]]
-	[[Category: Hansen, D.]]	+	[[Category: Hansen, D]]
-	[[Category: Kay, L E.]]	+	[[Category: Kay, L E]]
-	[[Category: Lange, O.]]	+	[[Category: Lange, O]]
-	[[Category: Vallurupalli, P.]]	+	[[Category: Vallurupalli, P]]
-	[[Category: Vernon, R M.]]	+	[[Category: Vernon, R M]]
	[[Category: Excited state]]		[[Category: Excited state]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 05:55, 29 September 2014

OCA — Mon, 29 Sep 2014 05:55:15 GMT

←Older revision		Revision as of 05:55, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2lcb.~~png~~\|~~left~~\|~~200px~~]]	+	==Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant==
		+	<StructureSection load='2lcb' size='340' side='right' caption='[[2lcb]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LCB FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3dmv\|3dmv]], [[3dmx\|3dmx]], [[2lc9\|2lc9]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=2lcb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lcb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lcb RCSB], [http://www.ebi.ac.uk/pdbsum/2lcb PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Proteins are inherently plastic molecules, whose function often critically depends on excursions between different molecular conformations (conformers). However, a rigorous understanding of the relation between a protein's structure, dynamics and function remains elusive. This is because many of the conformers on its energy landscape are only transiently formed and marginally populated (less than a few per cent of the total number of molecules), so that they cannot be individually characterized by most biophysical tools. Here we study a lysozyme mutant from phage T4 that binds hydrophobic molecules and populates an excited state transiently (about 1 ms) to about 3% at 25 degrees C (ref. 5). We show that such binding occurs only via the ground state, and present the atomic-level model of the 'invisible', excited state obtained using a combined strategy of relaxation-dispersion NMR (ref. 6) and CS-Rosetta model building that rationalizes this observation. The model was tested using structure-based design calculations identifying point mutants predicted to stabilize the excited state relative to the ground state. In this way a pair of mutations were introduced, inverting the relative populations of the ground and excited states and altering function. Our results suggest a mechanism for the evolution of a protein's function by changing the delicate balance between the states on its energy landscape. More generally, they show that our approach can generate and validate models of excited protein states.

-	~~{{STRUCTURE_2lcb\| PDB=2lcb \| SCENE= }}~~	+	Solution structure of a minor and transiently formed state of a T4 lysozyme mutant.,Bouvignies G, Vallurupalli P, Hansen DF, Correia BE, Lange O, Bah A, Vernon RM, Dahlquist FW, Baker D, Kay LE Nature. 2011 Aug 21;477(7362):111-4. doi: 10.1038/nature10349. PMID:21857680<ref>PMID:21857680</ref>

-	~~===Solution Structure of~~ a ~~Minor and Transiently Formed State~~ of ~~a T4 Lysozyme Mutant===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21857680}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2lcb]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].~~	+

	==See Also==		==See Also==
-	*[[~~Hen Egg-White (HEW)~~ Lysozyme\|~~Hen Egg-White (HEW)~~ Lysozyme]]	+	*[[Lysozyme 3D structures\|Lysozyme 3D structures]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021857680<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]

OCA at 22:17, 20 October 2012

OCA — Sat, 20 Oct 2012 22:17:12 GMT

←Older revision		Revision as of 22:17, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2lcb]] is a 1 chain structure ~~of [[Hen Egg-White (HEW) Lysozyme]]~~ with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].	+	[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].

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

OCA at 15:48, 27 July 2012

OCA — Fri, 27 Jul 2012 15:48:55 GMT

←Older revision		Revision as of 15:48, 27 July 2012
Line 1:		Line 1:
	[[Image:2lcb.png\|left\|200px]]		[[Image:2lcb.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2lcb", 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.
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	{{STRUCTURE_2lcb\| PDB=2lcb \| SCENE= }}		{{STRUCTURE_2lcb\| PDB=2lcb \| SCENE= }}

	===Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant===		===Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21857680}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21857680 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_21857680}}		{{ABSTRACT_PUBMED_21857680}}

	==About this Structure==		==About this Structure==
-	[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].	+	[[2lcb]] is a 1 chain structure of [[Hen Egg-White (HEW) Lysozyme]] with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].
		+
		+	==See Also==
		+	*[[Hen Egg-White (HEW) Lysozyme\|Hen Egg-White (HEW) Lysozyme]]

	==Reference==		==Reference==

OCA at 05:23, 7 September 2011

OCA — Wed, 07 Sep 2011 05:23:31 GMT

←Older revision		Revision as of 05:23, 7 September 2011
Line 1:		Line 1:
-	[[Image:2lcb.~~jpg~~\|left\|200px]]	+	[[Image:2lcb.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant===		===Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21857680}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21857680 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21857680}}

	==About this Structure==		==About this Structure==
	[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].		[[2lcb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LCB OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021857680</ref><references group="xtra"/>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]