2b6x - Revision history

OCA at 09:16, 14 February 2024

OCA — Wed, 14 Feb 2024 09:16:33 GMT

←Older revision		Revision as of 09:16, 14 February 2024
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	<StructureSection load='2b6x' size='340' side='right'caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>		<StructureSection load='2b6x' size='340' side='right'caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bpt4 Bpt4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B6X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BME:BETA~~-~~MERCAPTOETHANOL'>BME</scene>~~, ~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.107Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [https://pdbe.org/2b6x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [https://www.ebi.ac.uk/pdbsum/2b6x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b6x 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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [https://pdbe.org/2b6x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [https://www.ebi.ac.uk/pdbsum/2b6x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b6x 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>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=2b6x 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=2b6x ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Formation of a water-expelling nonpolar core is the paradigm of protein folding and stability. Although experiment largely confirms this picture, water buried in "hydrophobic" cavities is required for the function of some proteins. Hydration of the protein core has also been suggested as the mechanism of pressure-induced unfolding. We therefore are led to ask whether even the most nonpolar protein core is truly hydrophobic (i.e., water-repelling). To answer this question we probed the hydration of an approximately 160-A(3), highly hydrophobic cavity created by mutation in T4 lysozyme by using high-pressure crystallography and molecular dynamics simulation. We show that application of modest pressure causes approximately four water molecules to enter the cavity while the protein itself remains essentially unchanged. The highly cooperative filling is primarily due to a small change in bulk water activity, which implies that changing solvent conditions or, equivalently, cavity polarity can dramatically affect interior hydration of proteins and thereby influence both protein activity and folding.
-
-	Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation.,Collins MD, Hummer G, Quillin ML, Matthews BW, Gruner SM Proc Natl Acad Sci U S A. 2005 Nov 15;102(46):16668-71. Epub 2005 Nov 3. PMID:16269539<ref>PMID:16269539</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2b6x" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpt4~~]]	+	[[Category: Escherichia virus T4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Collins MD]]
-	[[Category: Collins~~, M D~~]]	+	[[Category: Gruner SM]]
-	[[Category: Gruner~~, S M~~]]	+	[[Category: Matthews BW]]
-	[[Category: Matthews~~, B W~~]]	+	[[Category: Quillin ML]]
-	[[Category: Quillin~~, M L]]~~	+
-	~~[[Category: High pressure]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: T4 lysozyme~~]]	+

OCA at 09:42, 5 May 2021

OCA — Wed, 05 May 2021 09:42:51 GMT

←Older revision		Revision as of 09:42, 5 May 2021
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	<StructureSection load='2b6x' size='340' side='right'caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>		<StructureSection load='2b6x' size='340' side='right'caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2B6X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</div></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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [~~http~~://pdbe.org/2b6x PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2b6x PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2b6x 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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [https://pdbe.org/2b6x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [https://www.ebi.ac.uk/pdbsum/2b6x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b6x 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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 09:34, 24 July 2019

OCA — Wed, 24 Jul 2019 09:34:50 GMT

←Older revision		Revision as of 09:34, 24 July 2019
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	==T4 Lysozyme mutant L99A at 200 MPa==		==T4 Lysozyme mutant L99A at 200 MPa==
-	<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>	+	<StructureSection load='2b6x' size='340' side='right'caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b6/2b6x_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b6/2b6x_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>
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	</StructureSection>		</StructureSection>
	[[Category: Bpt4]]		[[Category: Bpt4]]
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Collins, M D]]		[[Category: Collins, M D]]

OCA at 11:59, 12 October 2017

OCA — Thu, 12 Oct 2017 11:59:44 GMT

←Older revision		Revision as of 11:59, 12 October 2017
Line 1:		Line 1:
		+
	==T4 Lysozyme mutant L99A at 200 MPa==		==T4 Lysozyme mutant L99A at 200 MPa==
	<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>		<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://pdbe.org/2b6x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x 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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://pdbe.org/2b6x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2b6x ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 22:55, 9 February 2016

OCA — Tue, 09 Feb 2016 22:55:43 GMT

←Older revision		Revision as of 22:55, 9 February 2016
Line 18:		Line 18:
	<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=2b6x ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:52, 11 September 2015

OCA — Fri, 11 Sep 2015 02:52:36 GMT

←Older revision		Revision as of 02:52, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>		<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_t4 Enterobacteria phage t4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x 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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://pdbe.org/2b6x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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 2b6x" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage t4~~]]	+	[[Category: Bpt4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Collins, M D]]		[[Category: Collins, M D]]

OCA at 10:06, 25 December 2014

OCA — Thu, 25 Dec 2014 10:06:05 GMT

←Older revision		Revision as of 10:06, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x 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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x 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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
-	[[Category: Collins, M D.]]	+	[[Category: Collins, M D]]
-	[[Category: Gruner, S M.]]	+	[[Category: Gruner, S M]]
-	[[Category: Matthews, B W.]]	+	[[Category: Matthews, B W]]
-	[[Category: Quillin, M L.]]	+	[[Category: Quillin, M L]]
	[[Category: High pressure]]		[[Category: High pressure]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: T4 lysozyme]]		[[Category: T4 lysozyme]]

OCA at 05:23, 29 September 2014

OCA — Mon, 29 Sep 2014 05:23:17 GMT

←Older revision		Revision as of 05:23, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2b6x.~~png~~\|~~left~~\|200px]]	+	==T4 Lysozyme mutant L99A at 200 MPa==
		+	<StructureSection load='2b6x' size='340' side='right' caption='[[2b6x]], [[Resolution\|resolution]] 2.11Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B6X FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b6t\|2b6t]], [[2b6w\|2b6w]], [[2b6y\|2b6y]], [[2b6z\|2b6z]], [[2b70\|2b70]], [[2b72\|2b72]], [[2b73\|2b73]], [[2b74\|2b74]], [[2b75\|2b75]]</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=2b6x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b6x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b6x RCSB], [http://www.ebi.ac.uk/pdbsum/2b6x 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/b6/2b6x_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 ==
		+	Formation of a water-expelling nonpolar core is the paradigm of protein folding and stability. Although experiment largely confirms this picture, water buried in "hydrophobic" cavities is required for the function of some proteins. Hydration of the protein core has also been suggested as the mechanism of pressure-induced unfolding. We therefore are led to ask whether even the most nonpolar protein core is truly hydrophobic (i.e., water-repelling). To answer this question we probed the hydration of an approximately 160-A(3), highly hydrophobic cavity created by mutation in T4 lysozyme by using high-pressure crystallography and molecular dynamics simulation. We show that application of modest pressure causes approximately four water molecules to enter the cavity while the protein itself remains essentially unchanged. The highly cooperative filling is primarily due to a small change in bulk water activity, which implies that changing solvent conditions or, equivalently, cavity polarity can dramatically affect interior hydration of proteins and thereby influence both protein activity and folding.

-	~~{{STRUCTURE_2b6x\| PDB=2b6x \| SCENE= }}~~	+	Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation.,Collins MD, Hummer G, Quillin ML, Matthews BW, Gruner SM Proc Natl Acad Sci U S A. 2005 Nov 15;102(46):16668-71. Epub 2005 Nov 3. PMID:16269539<ref>PMID:16269539</ref>

-	~~===T4 Lysozyme mutant L99A at 200 MPa===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16269539}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2b6x]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X 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:016269539<~~/~~ref~~><~~ref group="xtra">PMID:017292912</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]

OCA at 15:26, 20 October 2012

OCA — Sat, 20 Oct 2012 15:26:11 GMT

←Older revision		Revision as of 15:26, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2b6x]] 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 crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA].	+	[[2b6x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B6X OCA].

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

OCA: Protected "2b6x" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 18:22:11 GMT

Protected "2b6x" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:22, 26 July 2012