3r3o - Revision history

OCA at 12:09, 14 March 2024

OCA — Thu, 14 Mar 2024 12:09:33 GMT

←Older revision		Revision as of 12:09, 14 March 2024
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	<StructureSection load='3r3o' size='340' side='right'caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3r3o' size='340' side='right'caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus~~ aureus~~" (rosenbach 1884) zopf 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R3O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R3O FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE~~-3,~~5-DIPHOSPHATE'>THP</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]] 1.9Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>nuc ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1280~~ "~~Micrococcus aureus~~" ~~(Rosenbach 1884) Zopf 1885])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease]~~, ~~with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1]~~ </~~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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [https://pdbe.org/3r3o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [https://www.ebi.ac.uk/pdbsum/3r3o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r3o 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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [https://pdbe.org/3r3o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [https://www.ebi.ac.uk/pdbsum/3r3o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r3o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~NUC_STAAU NUC_STAAU]~~] Enzyme that catalyzes the hydrolysis of both DNA and RNA at the 5' position of the phosphodiester bond.	+	[https://www.uniprot.org/uniprot/NUC_STAAW NUC_STAAW] Enzyme that catalyzes the hydrolysis of both DNA and RNA at the 5' position of the phosphodiester bond (By similarity).
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	It has been known for nearly 100 years that pressure unfolds proteins, yet the physical basis of this effect is not understood. Unfolding by pressure implies that the molar volume of the unfolded state of a protein is smaller than that of the folded state. This decrease in volume has been proposed to arise from differences between the density of bulk water and water associated with the protein, from pressure-dependent changes in the structure of bulk water, from the loss of internal cavities in the folded states of proteins, or from some combination of these three factors. Here, using 10 cavity-containing variants of staphylococcal nuclease, we demonstrate that pressure unfolds proteins primarily as a result of cavities that are present in the folded state and absent in the unfolded one. High-pressure NMR spectroscopy and simulations constrained by the NMR data were used to describe structural and energetic details of the folding landscape of staphylococcal nuclease that are usually inaccessible with existing experimental approaches using harsher denaturants. Besides solving a 100-year-old conundrum concerning the detailed structural origins of pressure unfolding of proteins, these studies illustrate the promise of pressure perturbation as a unique tool for examining the roles of packing, conformational fluctuations, and water penetration as determinants of solution properties of proteins, and for detecting folding intermediates and other structural details of protein-folding landscapes that are invisible to standard experimental approaches.	+
-		+
-	Cavities determine the pressure unfolding of proteins.,Roche J, Caro JA, Norberto DR, Barthe P, Roumestand C, Schlessman JL, Garcia AE, Garcia-Moreno E B, Royer CA Proc Natl Acad Sci U S A. 2012 Apr 10. PMID:22496593<ref>PMID:22496593</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3r3o" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Staphylococcal nuclease 3D structures\|Staphylococcal nuclease 3D structures]]		*[[Staphylococcal nuclease 3D structures\|Staphylococcal nuclease 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Micrococcal nuclease~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: Caro~~, J A~~]]	+	[[Category: Caro JA]]
-	[[Category: ~~E., B~~ Garcia-Moreno]]	+	[[Category: Garcia-Moreno E B]]
-	[[Category: Schlessman~~, J L]]~~	+	[[Category: Schlessman JL]]
-	~~[[Category: Cavity]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Hyperstable variant]]~~	+
-	~~[[Category: Pdtp]]~~	+
-	~~[[Category: Pressure~~]]	+

OCA at 05:47, 15 June 2022

OCA — Wed, 15 Jun 2022 05:47:37 GMT

←Older revision		Revision as of 05:47, 15 June 2022
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	==Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy==		==Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy==
-	<StructureSection load='3r3o' size='340' side='right' caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='3r3o' size='340' side='right'caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3R3O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R3O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nuc ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nuc ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1] </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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [~~http~~://pdbe.org/3r3o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3r3o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3r3o 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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [https://pdbe.org/3r3o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [https://www.ebi.ac.uk/pdbsum/3r3o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r3o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NUC_STAAU NUC_STAAU]] Enzyme that catalyzes the hydrolysis of both DNA and RNA at the 5' position of the phosphodiester bond.	+	[[https://www.uniprot.org/uniprot/NUC_STAAU NUC_STAAU]] Enzyme that catalyzes the hydrolysis of both DNA and RNA at the 5' position of the phosphodiester bond.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[Staphylococcal nuclease\|Staphylococcal nuclease]]	+	*[[Staphylococcal nuclease 3D structures\|Staphylococcal nuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Micrococcal nuclease]]		[[Category: Micrococcal nuclease]]
	[[Category: Caro, J A]]		[[Category: Caro, J A]]

OCA at 02:15, 5 August 2016

OCA — Fri, 05 Aug 2016 02:15:47 GMT

←Older revision		Revision as of 02:15, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy==		==Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy==
	<StructureSection load='3r3o' size='340' side='right' caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3r3o' size='340' side='right' caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus Staphylococcus~~ aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3R3O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3R3O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nuc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 ~~Staphylococcus~~ aureus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nuc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1] </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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [http://www.ebi.ac.uk/pdbsum/3r3o 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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [http://pdbe.org/3r3o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [http://www.ebi.ac.uk/pdbsum/3r3o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3r3o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 3r3o" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 27:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Micrococcal nuclease]]		[[Category: Micrococcal nuclease]]
-	[[Category: Staphylococcus aureus]]
	[[Category: Caro, J A]]		[[Category: Caro, J A]]
	[[Category: E., B Garcia-Moreno]]		[[Category: E., B Garcia-Moreno]]

OCA at 21:57, 24 December 2014

OCA — Wed, 24 Dec 2014 21:57:30 GMT

←Older revision		Revision as of 21:57, 24 December 2014
Line 9:		Line 9:
	<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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [http://www.ebi.ac.uk/pdbsum/3r3o 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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [http://www.ebi.ac.uk/pdbsum/3r3o PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NUC_STAAU NUC_STAAU]] Enzyme that catalyzes the hydrolysis of both DNA and RNA at the 5' position of the phosphodiester bond.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 13:37, 9 December 2014

OCA — Tue, 09 Dec 2014 13:37:54 GMT

←Older revision		Revision as of 13:37, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3r3o.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy==
		+	<StructureSection load='3r3o' size='340' side='right' caption='[[3r3o]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3R3O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=THP:THYMIDINE-3,5-DIPHOSPHATE'>THP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bdc\|3bdc]], [[3mxp\|3mxp]], [[3meh\|3meh]], [[3mhb\|3mhb]], [[3mz5\|3mz5]], [[3mvv\|3mvv]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nuc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Micrococcal_nuclease Micrococcal nuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.31.1 3.1.31.1] </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=3r3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r3o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3r3o RCSB], [http://www.ebi.ac.uk/pdbsum/3r3o PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	It has been known for nearly 100 years that pressure unfolds proteins, yet the physical basis of this effect is not understood. Unfolding by pressure implies that the molar volume of the unfolded state of a protein is smaller than that of the folded state. This decrease in volume has been proposed to arise from differences between the density of bulk water and water associated with the protein, from pressure-dependent changes in the structure of bulk water, from the loss of internal cavities in the folded states of proteins, or from some combination of these three factors. Here, using 10 cavity-containing variants of staphylococcal nuclease, we demonstrate that pressure unfolds proteins primarily as a result of cavities that are present in the folded state and absent in the unfolded one. High-pressure NMR spectroscopy and simulations constrained by the NMR data were used to describe structural and energetic details of the folding landscape of staphylococcal nuclease that are usually inaccessible with existing experimental approaches using harsher denaturants. Besides solving a 100-year-old conundrum concerning the detailed structural origins of pressure unfolding of proteins, these studies illustrate the promise of pressure perturbation as a unique tool for examining the roles of packing, conformational fluctuations, and water penetration as determinants of solution properties of proteins, and for detecting folding intermediates and other structural details of protein-folding landscapes that are invisible to standard experimental approaches.

-	~~{{STRUCTURE_3r3o\| PDB=3r3o \| SCENE= }}~~	+	Cavities determine the pressure unfolding of proteins.,Roche J, Caro JA, Norberto DR, Barthe P, Roumestand C, Schlessman JL, Garcia AE, Garcia-Moreno E B, Royer CA Proc Natl Acad Sci U S A. 2012 Apr 10. PMID:22496593<ref>PMID:22496593</ref>

-	~~===Crystal structure~~ of ~~Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22496593}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3r3o]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Staphylococcus_aureus Staphylococcus aureus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].~~	+

	==See Also==		==See Also==
	*[[Staphylococcal nuclease\|Staphylococcal nuclease]]		*[[Staphylococcal nuclease\|Staphylococcal nuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:022496593<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Micrococcal nuclease]]		[[Category: Micrococcal nuclease]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
-	[[Category: Caro, J A.]]	+	[[Category: Caro, J A]]
-	[[Category: E., B Garcia-Moreno.]]	+	[[Category: E., B Garcia-Moreno]]
-	[[Category: Schlessman, J L.]]	+	[[Category: Schlessman, J L]]
	[[Category: Cavity]]		[[Category: Cavity]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 09:32, 20 October 2012

OCA — Sat, 20 Oct 2012 09:32:30 GMT

←Older revision		Revision as of 09:32, 20 October 2012
Line 1:		Line 1:
	[[Image:3r3o.png\|left\|200px]]		[[Image:3r3o.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3r3o", 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_3r3o\| PDB=3r3o \| SCENE= }}		{{STRUCTURE_3r3o\| PDB=3r3o \| SCENE= }}

	===Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===		===Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_22496593}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 22496593 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_22496593}}		{{ABSTRACT_PUBMED_22496593}}

	==About this Structure==		==About this Structure==
	[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].		[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].
		+
		+	==See Also==
		+	*[[Staphylococcal nuclease\|Staphylococcal nuclease]]

	==Reference==		==Reference==

OCA at 05:01, 23 May 2012

OCA — Wed, 23 May 2012 05:01:45 GMT

←Older revision		Revision as of 05:01, 23 May 2012
Line 1:		Line 1:
-	[[Image:3r3o.~~jpg~~\|left\|200px]]	+	[[Image:3r3o.png\|left\|200px]]

	<!--		<!--
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	===Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===		===Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22496593}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22496593 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22496593}}

	==About this Structure==		==About this Structure==
	[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].		[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022496593</ref><references group="xtra"/>
	[[Category: Micrococcal nuclease]]		[[Category: Micrococcal nuclease]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
Line 19:		Line 28:
	[[Category: E., B Garcia-Moreno.]]		[[Category: E., B Garcia-Moreno.]]
	[[Category: Schlessman, J L.]]		[[Category: Schlessman, J L.]]
		+	[[Category: Cavity]]
		+	[[Category: Hydrolase]]
		+	[[Category: Hyperstable variant]]
		+	[[Category: Pdtp]]
		+	[[Category: Pressure]]

OCA at 08:19, 30 March 2011

OCA — Wed, 30 Mar 2011 08:19:58 GMT

←Older revision		Revision as of 08:19, 30 March 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3r3o.jpg\|left\|200px]]

-	The ~~entry 3r3o~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3r3o", 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_3r3o\| PDB=3r3o \| SCENE= }}

-	~~Authors: Caro, J.A., Schlessman, J.L., Garcia-Moreno E., B.~~	+	===Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy===

-	~~Description: Crystal~~ structure ~~of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and~~ with ~~high redundancy~~	+
		+	==About this Structure==
		+	[[3r3o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R3O OCA].
		+	[[Category: Micrococcal nuclease]]
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Caro, J A.]]
		+	[[Category: E., B Garcia-Moreno.]]
		+	[[Category: Schlessman, J L.]]

OCA: Protected "3r3o" [edit=sysop:move=sysop]

OCA — Wed, 23 Mar 2011 06:51:06 GMT

Protected "3r3o" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:51, 23 March 2011

OCA: New page: '''Unreleased structure''' The entry 3r3o is ON HOLD Authors: Caro, J.A., Schlessman, J.L., Garcia-Moreno E., B. Description: Crystal structure of Staphylococcal nuclease variant Delta...

OCA — Wed, 23 Mar 2011 06:51:05 GMT

New page: '''Unreleased structure''' The entry 3r3o is ON HOLD Authors: Caro, J.A., Schlessman, J.L., Garcia-Moreno E., B. Description: Crystal structure of Staphylococcal nuclease variant Delta...

New page

'''Unreleased structure'''

The entry 3r3o is ON HOLD

Authors: Caro, J.A., Schlessman, J.L., Garcia-Moreno E., B.

Description: Crystal structure of Staphylococcal nuclease variant Delta+PHS T62A at cryogenic temperature and with high redundancy