3lym - Revision history

OCA at 13:34, 25 December 2019

2019-12-25T13:34:18Z

←Older revision		Revision as of 13:34, 25 December 2019
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	==CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES==		==CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES==
-	<StructureSection load='3lym' size='340' side='right' caption='[[3lym]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='3lym' size='340' side='right'caption='[[3lym]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chick Chick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>		<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chick Chick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ly/3lym_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ly/3lym_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>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Chick]]		[[Category: Chick]]
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Kundrot, C E]]		[[Category: Kundrot, C E]]
	[[Category: Richards, F M]]		[[Category: Richards, F M]]

OCA at 18:20, 5 August 2016

2016-08-05T18:20:22Z

←Older revision		Revision as of 18:20, 5 August 2016
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		+
	==CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES==		==CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES==
	<StructureSection load='3lym' size='340' side='right' caption='[[3lym]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='3lym' size='340' side='right' caption='[[3lym]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Gallus_gallus Gallus gallus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chick Chick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lym\|2lym]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lym\|2lym]]</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=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB], [http://www.ebi.ac.uk/pdbsum/3lym 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=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://pdbe.org/3lym PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB], [http://www.ebi.ac.uk/pdbsum/3lym PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lym ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	<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=3lym ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<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 3lym" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Gallus gallus~~]]	+	[[Category: Chick]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Kundrot, C E]]		[[Category: Kundrot, C E]]
	[[Category: Richards, F M]]		[[Category: Richards, F M]]

OCA at 20:55, 25 December 2014

2014-12-25T20:55:39Z

←Older revision		Revision as of 20:55, 25 December 2014
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>		<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lym\|2lym]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lym\|2lym]]</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=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB], [http://www.ebi.ac.uk/pdbsum/3lym 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=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB], [http://www.ebi.ac.uk/pdbsum/3lym PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
-	[[Category: Kundrot, C E.]]	+	[[Category: Kundrot, C E]]
-	[[Category: Richards, F M.]]	+	[[Category: Richards, F M]]

OCA at 10:52, 29 September 2014

2014-09-29T10:52:12Z

←Older revision		Revision as of 10:52, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3lym.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES==
		+	<StructureSection load='3lym' size='340' side='right' caption='[[3lym]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lym\|2lym]]</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=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB], [http://www.ebi.ac.uk/pdbsum/3lym 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/ly/3lym_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structure of tetragonal hen egg-white lysozyme at a hydrostatic pressure of 1000 atmospheres has been determined by X-ray diffraction to a nominal resolution of 2 A. The crystals, originally grown in 0.83 M-NaCl, had to be transferred to 1.4 M-NaCl to prevent crystal cracking at 300 to 400 atm. The a and b axes of the unit cell contracted by 0.6%, whilst the c axis increased by 0.1%. The unit cell volume contracted by 1.1%. Both the 1 atm and the 1000 atm structures were refined by restrained least-squares to yield final R factors of 14.9% in each case. Since the data were collected by an accurate difference protocol, the change in structure is considered to be more accurate than the absolute structure. The probable accuracy of the atomic shifts is shown to be +/- 0.06 A. The estimated volume decrease of the whole molecule corresponded to an isothermal compressibility of 4.7 X 10(-3) kbar-1. The contraction was non-uniformly distributed. Domain 2 (residues 40 to 88) was essentially incompressible, whilst domain 1 (residues 1 to 39, 89 to 129) had a compressibility of 5.7 X 10(-3) kbar-1. The interdomain region was also compressible. The average B factor decreased about 1 A2 at 1000 atm, but there was a wide range of decreases and increases in individual values. The pressure-induced deformation was analyzed with difference distance matrices. The beta-sheet (residues 42 to 60) and helix 2 (residues 24 to 36) were deformed the least under pressure. The other helices were more deformed and one loop region (residues 61 to 87) actually appeared to expand. The main-chain atoms of the beta-sheet and helix 2 were used to perform a least-squares superposition of the 1 atm and 1000 atm models. The root-mean-square pressure-induced shift for all atoms was 0.2 A, with a few atoms moving more than 1 A. There was no evidence for co-ordinated movement about the hinge axis defined by alpha carbon atoms 38 and 97. The 1 atm and 1000 atm refined structures included 151 and 163 ordered water molecules, respectively. The changes in these ordered water molecules and the mean compressibility of all of the solvent in the crystal will be described elsewhere.

-	~~{{STRUCTURE_3lym\| PDB=3lym \| SCENE= }}~~	+	Crystal structure of hen egg-white lysozyme at a hydrostatic pressure of 1000 atmospheres.,Kundrot CE, Richards FM J Mol Biol. 1987 Jan 5;193(1):157-70. PMID:3586017<ref>PMID:3586017</ref>

-	~~===CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_3586017}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3lym]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Gallus_gallus Gallus gallus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM 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:003586017<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Kundrot, C E.]]		[[Category: Kundrot, C E.]]
	[[Category: Richards, F M.]]		[[Category: Richards, F M.]]

OCA at 21:31, 20 October 2012

2012-10-20T21:31:39Z

←Older revision		Revision as of 21:31, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[3lym]] is a 1 chain structure ~~of [[Hen Egg-White (HEW) Lysozyme]]~~ with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].	+	[[3lym]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].

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

OCA: Protected "3lym" [edit=sysop:move=sysop]

2012-07-27T13:31:36Z

Protected "3lym" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:31, 27 July 2012

OCA at 13:31, 27 July 2012

2012-07-27T13:31:34Z

←Older revision		Revision as of 13:31, 27 July 2012
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-	{{Seed}}
	[[Image:3lym.png\|left\|200px]]		[[Image:3lym.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3lym", 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_3lym\| PDB=3lym \| SCENE= }}		{{STRUCTURE_3lym\| PDB=3lym \| SCENE= }}

	===CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES===		===CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_3586017}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 3586017 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_3586017}}		{{ABSTRACT_PUBMED_3586017}}

	==About this Structure==		==About this Structure==
-	~~3LYM~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].	+	[[3lym]] is a 1 chain structure of [[Hen Egg-White (HEW) Lysozyme]] with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].
		+
		+	==See Also==
		+	*[[Hen Egg-White (HEW) Lysozyme\|Hen Egg-White (HEW) Lysozyme]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~3586017~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:003586017</ref><references group="xtra"/>
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Kundrot, C E.]]		[[Category: Kundrot, C E.]]
	[[Category: Richards, F M.]]		[[Category: Richards, F M.]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:57:16 2009''

OCA at 04:57, 18 February 2009

2009-02-18T04:57:18Z

←Older revision		Revision as of 04:57, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3LYM is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].	+	3LYM is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYM OCA].

	==Reference==		==Reference==
-	~~Crystal structure of hen egg-white lysozyme at a hydrostatic pressure of 1000 atmospheres., Kundrot CE, Richards FM, J Mol Biol. 1987 Jan 5;193(1):157-70.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/3586017 3586017]~~	+	<ref group="xtra">PMID:3586017</ref><references group="xtra"/>
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
-	[[Category: Single protein]]
	[[Category: Kundrot, C E.]]		[[Category: Kundrot, C E.]]
	[[Category: Richards, F M.]]		[[Category: Richards, F M.]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 12~~:54:~~04 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:57:16 2009''

OCA at 09:54, 3 July 2008

2008-07-03T09:54:05Z

←Older revision		Revision as of 09:54, 3 July 2008
Line 1:		Line 1:
-	[[Image:3lym.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:3lym.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_3lym\| PDB=3lym \| SCENE= }}		{{STRUCTURE_3lym\| PDB=3lym \| SCENE= }}

-	~~'''~~CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES~~'''~~	+	===CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES===


-	~~==Overview==~~	+	<!--
-	~~The crystal structure of tetragonal hen egg~~-~~white lysozyme at a hydrostatic pressure of 1000 atmospheres has been determined by X~~-~~ray diffraction to a nominal resolution of 2 A.~~ The ~~crystals~~, ~~originally grown in 0.83 M-NaCl~~, ~~had to be transferred to 1.4 M-NaCl to prevent crystal cracking at 300 to 400 atm. The a and b axes of~~ the ~~unit cell contracted by 0.6%, whilst the c axis increased by 0.1%. The unit cell volume contracted by 1.1%. Both the 1 atm and the 1000 atm structures were refined by restrained least-squares~~ to ~~yield final R factors of 14.9% in each case. Since~~ the data were collected by an accurate difference protocol, the change in structure is considered to be more accurate than the absolute structure. The probable accuracy of the atomic shifts is shown to be +/~~- 0~~.~~06 A~~. ~~The estimated volume decrease of the whole molecule corresponded to an isothermal compressibility of 4.7 X 10(-3~~) ~~kbar-1. The contraction was non-uniformly distributed. Domain 2 (residues 40 to 88) was essentially incompressible~~, whilst domain 1 (residues 1 to 39, 89 to 129) had a compressibility of 5.7 X 10(-3) kbar-1. The interdomain region was also compressible. The average B factor decreased about 1 A2 at 1000 atm, but there was a wide range of decreases and increases in individual values. The pressure-induced deformation was analyzed with difference distance matrices. The beta-sheet (residues 42 to 60) and helix 2 (residues 24 to 36) were deformed the ~~least under pressure~~. ~~The other helices were more deformed and one loop region (residues 61 to 87) actually appeared to expand. The main~~-~~chain atoms of the beta~~-sheet and helix 2 were used to perform a least-squares superposition of the 1 atm and 1000 atm models. The root-mean-square pressure-induced shift for all atoms was 0.2 A, with a few atoms moving more than 1 A. There was no evidence for co-ordinated movement about the hinge axis defined by alpha carbon atoms 38 and 97. The 1 atm and 1000 atm refined structures included 151 and 163 ordered water molecules, respectively. The changes in these ordered water molecules and the mean compressibility of all of the solvent in the crystal will be described elsewhere.	+	The line below this paragraph, {{ABSTRACT_PUBMED_3586017}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 3586017 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_3586017}}

	==About this Structure==		==About this Structure==
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	[[Category: Kundrot, C E.]]		[[Category: Kundrot, C E.]]
	[[Category: Richards, F M.]]		[[Category: Richards, F M.]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:06:14 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 12:54:04 2008''

OCA at 19:06, 4 May 2008

2008-05-04T19:06:15Z

←Older revision		Revision as of 19:06, 4 May 2008
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	[[Image:3lym.gif\|left\|200px]]		[[Image:3lym.gif\|left\|200px]]

-	{{Structure	+	<!--
-	\|PDB~~= 3lym \|SIZE=350\|CAPTION= <~~scene ~~name='initialview01'>3lym</scene>~~, ~~resolution 2~~.~~0Å~~	+	The line below this paragraph, containing "STRUCTURE_3lym", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND=~~	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	~~\|ACTIVITY= <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~~>	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	\|~~DOMAIN~~=	+	{{STRUCTURE_3lym\| PDB=3lym \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3lym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lym OCA], [http://www.ebi.ac.uk/pdbsum/3lym PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3lym RCSB]</span>	+
-	}}	+

	'''CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES'''		'''CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME AT A HYDROSTATIC PRESSURE OF 1000 ATMOSPHERES'''
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	[[Category: Kundrot, C E.]]		[[Category: Kundrot, C E.]]
	[[Category: Richards, F M.]]		[[Category: Richards, F M.]]
-	~~[[Category: hydrolase (o-glycosyl)]]~~	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:06:14 2008''
-		+
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:34:24 2008''	+