1zwx - Revision history

OCA at 09:07, 14 February 2024

2024-02-14T09:07:12Z

←Older revision		Revision as of 09:07, 14 February 2024
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	<StructureSection load='1zwx' size='340' side='right'caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1zwx' size='340' side='right'caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"listeria_bulgarica"_ivanov_1975 "listeria bulgarica" ivanov 1975~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>smcl ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1638~~ "~~Listeria bulgarica~~" ~~Ivanov 1975])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12]~~ </~~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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [https://pdbe.org/1zwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [https://www.ebi.ac.uk/pdbsum/1zwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zwx 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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [https://pdbe.org/1zwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [https://www.ebi.ac.uk/pdbsum/1zwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zwx ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PHLC_LISIV PHLC_LISIV]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</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=1zwx 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=1zwx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Sphingomyelinases C are enzymes that catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine. Various pathogenic bacteria produce secreted neutral sphingomyelinases C that act as membrane-damaging virulence factors. Mammalian neutral sphingomyelinases C, which display sequence homology to the bacterial enzymes, are involved in sphingolipid metabolism and signaling. This article describes the first structure to be determined for a member of the neutral sphingomyelinase C family, SmcL, from the intracellular bacterial pathogen Listeria ivanovii. The structure has been refined to 1.9-A resolution with phases derived by single isomorphous replacement with anomalous scattering techniques from a single iridium derivative. SmcL adopts a DNase I-like fold, and is the first member of this protein superfamily to have its structure determined that acts as a phospholipase. The structure reveals several unique features that adapt the protein to its phospholipid substrate. These include large hydrophobic beta-hairpin and hydrophobic loops surrounding the active site that may bind and penetrate the lipid bilayer to position sphingomyelin in a catalytically competent position. The structure also provides insight into the proposed general base/acid catalytic mechanism, in which His-325 and His-185 play key roles.
-
-	Crystal structure of SmcL, a bacterial neutral sphingomyelinase C from Listeria.,Openshaw AE, Race PR, Monzo HJ, Vazquez-Boland JA, Banfield MJ J Biol Chem. 2005 Oct 14;280(41):35011-7. Epub 2005 Aug 10. PMID:16093240<ref>PMID:16093240</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1zwx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Sphingomyelinase\|Sphingomyelinase]]		*[[Sphingomyelinase\|Sphingomyelinase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Listeria bulgarica ivanov 1975]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sphingomyelin phosphodiesterase~~]]	+	[[Category: Listeria ivanovii]]
-	[[Category: Banfield~~, M J~~]]	+	[[Category: Banfield MJ]]
-	[[Category: Monzo~~, H J~~]]	+	[[Category: Monzo HJ]]
-	[[Category: Openshaw~~, A E.A~~]]	+	[[Category: Openshaw AEA]]
-	[[Category: Race~~, P R~~]]	+	[[Category: Race PR]]
-	[[Category: Vasquez-Boland~~, J A]]~~	+	[[Category: Vasquez-Boland JA]]
-	~~[[Category: Beta-hairpin]]~~	+
-	~~[[Category: Dnase1-like fold]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:19, 27 January 2021

2021-01-27T08:19:24Z

←Older revision		Revision as of 08:19, 27 January 2021
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	==Crystal Structure of SmcL==		==Crystal Structure of SmcL==
-	<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='1zwx' size='340' side='right'caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"listeria_bulgarica"_ivanov_1975 "listeria bulgarica" ivanov 1975]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"listeria_bulgarica"_ivanov_1975 "listeria bulgarica" ivanov 1975]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 "Listeria bulgarica" Ivanov 1975])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 "Listeria bulgarica" Ivanov 1975])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [~~http~~://pdbe.org/1zwx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1zwx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1zwx 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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [https://pdbe.org/1zwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [https://www.ebi.ac.uk/pdbsum/1zwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zwx ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1zwx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1zwx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sphingomyelinase\|Sphingomyelinase]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Listeria bulgarica ivanov 1975]]		[[Category: Listeria bulgarica ivanov 1975]]
		+	[[Category: Large Structures]]
	[[Category: Sphingomyelin phosphodiesterase]]		[[Category: Sphingomyelin phosphodiesterase]]
	[[Category: Banfield, M J]]		[[Category: Banfield, M J]]

OCA at 09:25, 2 May 2018

2018-05-02T09:25:51Z

←Older revision		Revision as of 09:25, 2 May 2018
Line 1:		Line 1:
		+
	==Crystal Structure of SmcL==		==Crystal Structure of SmcL==
	<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 "Listeria bulgarica" Ivanov 1975])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 "Listeria bulgarica" Ivanov 1975])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://pdbe.org/1zwx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx 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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://pdbe.org/1zwx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1zwx ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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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/zw/1zwx_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zw/1zwx_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1zwx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1zwx" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Sphingomyelinase\|Sphingomyelinase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:58, 9 February 2016

2016-02-09T06:58:37Z

←Older revision		Revision as of 06:58, 9 February 2016
Line 16:		Line 16:
	<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=1zwx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 19:44, 10 September 2015

2015-09-10T19:44:49Z

←Older revision		Revision as of 19:44, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Listeria_ivanovii Listeria ivanovii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"listeria_bulgarica"_ivanov_1975 "listeria bulgarica" ivanov 1975]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 Listeria ~~ivanovii~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 "Listeria bulgarica" Ivanov 1975])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx 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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://pdbe.org/1zwx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1zwx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Listeria ~~ivanovii~~]]	+	[[Category: Listeria bulgarica ivanov 1975]]
	[[Category: Sphingomyelin phosphodiesterase]]		[[Category: Sphingomyelin phosphodiesterase]]
	[[Category: Banfield, M J]]		[[Category: Banfield, M J]]

OCA at 05:12, 25 December 2014

2014-12-25T05:12:17Z

←Older revision		Revision as of 05:12, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 Listeria ivanovii])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 Listeria ivanovii])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx 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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Listeria ivanovii]]		[[Category: Listeria ivanovii]]
	[[Category: Sphingomyelin phosphodiesterase]]		[[Category: Sphingomyelin phosphodiesterase]]
-	[[Category: Banfield, M J.]]	+	[[Category: Banfield, M J]]
-	[[Category: Monzo, H J.]]	+	[[Category: Monzo, H J]]
-	[[Category: Openshaw, A E.A.]]	+	[[Category: Openshaw, A E.A]]
-	[[Category: Race, P R.]]	+	[[Category: Race, P R]]
-	[[Category: Vasquez-Boland, J A.]]	+	[[Category: Vasquez-Boland, J A]]
	[[Category: Beta-hairpin]]		[[Category: Beta-hairpin]]
	[[Category: Dnase1-like fold]]		[[Category: Dnase1-like fold]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 04:54, 29 September 2014

2014-09-29T04:54:08Z

←Older revision		Revision as of 04:54, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1zwx.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of SmcL==
		+	<StructureSection load='1zwx' size='340' side='right' caption='[[1zwx]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ZWX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">smcl ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1638 Listeria ivanovii])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sphingomyelin_phosphodiesterase Sphingomyelin phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.12 3.1.4.12] </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=1zwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1zwx RCSB], [http://www.ebi.ac.uk/pdbsum/1zwx 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/zw/1zwx_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 ==
		+	Sphingomyelinases C are enzymes that catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine. Various pathogenic bacteria produce secreted neutral sphingomyelinases C that act as membrane-damaging virulence factors. Mammalian neutral sphingomyelinases C, which display sequence homology to the bacterial enzymes, are involved in sphingolipid metabolism and signaling. This article describes the first structure to be determined for a member of the neutral sphingomyelinase C family, SmcL, from the intracellular bacterial pathogen Listeria ivanovii. The structure has been refined to 1.9-A resolution with phases derived by single isomorphous replacement with anomalous scattering techniques from a single iridium derivative. SmcL adopts a DNase I-like fold, and is the first member of this protein superfamily to have its structure determined that acts as a phospholipase. The structure reveals several unique features that adapt the protein to its phospholipid substrate. These include large hydrophobic beta-hairpin and hydrophobic loops surrounding the active site that may bind and penetrate the lipid bilayer to position sphingomyelin in a catalytically competent position. The structure also provides insight into the proposed general base/acid catalytic mechanism, in which His-325 and His-185 play key roles.

-	~~{{STRUCTURE_1zwx\| PDB=1zwx \| SCENE= }}~~	+	Crystal structure of SmcL, a bacterial neutral sphingomyelinase C from Listeria.,Openshaw AE, Race PR, Monzo HJ, Vazquez-Boland JA, Banfield MJ J Biol Chem. 2005 Oct 14;280(41):35011-7. Epub 2005 Aug 10. PMID:16093240<ref>PMID:16093240</ref>

-	~~===Crystal Structure~~ of ~~SmcL===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16093240}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1zwx]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Listeria_ivanovii Listeria ivanovii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA].~~	+

	==See Also==		==See Also==
	*[[Sphingomyelinase\|Sphingomyelinase]]		*[[Sphingomyelinase\|Sphingomyelinase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016093240<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Listeria ivanovii]]		[[Category: Listeria ivanovii]]
	[[Category: Sphingomyelin phosphodiesterase]]		[[Category: Sphingomyelin phosphodiesterase]]

OCA at 13:02, 20 October 2012

2012-10-20T13:02:32Z

←Older revision		Revision as of 13:02, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1zwx]] is a 1 chain structure ~~of [[Sphingomyelinase]]~~ with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA].	+	[[1zwx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA].

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

OCA: Protected "1zwx" [edit=sysop:move=sysop]

2012-07-26T10:43:46Z

Protected "1zwx" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:43, 26 July 2012

OCA at 10:43, 26 July 2012

2012-07-26T10:43:44Z

←Older revision		Revision as of 10:43, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1zwx.png\|left\|200px]]		[[Image:1zwx.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1zwx", 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_1zwx\| PDB=1zwx \| SCENE= }}		{{STRUCTURE_1zwx\| PDB=1zwx \| SCENE= }}

	===Crystal Structure of SmcL===		===Crystal Structure of SmcL===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16093240}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16093240 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16093240}}		{{ABSTRACT_PUBMED_16093240}}

	==About this Structure==		==About this Structure==
-	~~1ZWX~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA].	+	[[1zwx]] is a 1 chain structure of [[Sphingomyelinase]] with sequence from [http://en.wikipedia.org/wiki/Listeria_ivanovii Listeria ivanovii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZWX OCA].
		+
		+	==See Also==
		+	*[[Sphingomyelinase\|Sphingomyelinase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16093240~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016093240</ref><references group="xtra"/>
	[[Category: Listeria ivanovii]]		[[Category: Listeria ivanovii]]
	[[Category: Sphingomyelin phosphodiesterase]]		[[Category: Sphingomyelin phosphodiesterase]]
Line 33:		Line 24:
	[[Category: Beta-hairpin]]		[[Category: Beta-hairpin]]
	[[Category: Dnase1-like fold]]		[[Category: Dnase1-like fold]]
-		+	[[Category: Hydrolase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 07:45:48 2009''~~	+