1z5u - Revision history

OCA at 08:14, 25 October 2023

OCA — Wed, 25 Oct 2023 08:14:07 GMT

←Older revision		Revision as of 08:14, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='1z5u' size='340' side='right'caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1z5u' size='340' side='right'caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CMP:ADENOSINE~~-3~~,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1z5g\|1z5g]], [[1z88\|1z88]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2]~~ </~~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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [https://pdbe.org/1z5u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [https://www.ebi.ac.uk/pdbsum/1z5u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z5u 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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [https://pdbe.org/1z5u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [https://www.ebi.ac.uk/pdbsum/1z5u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z5u ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/APHA_SALTM APHA_SALTM] Dephosphorylates several organic phosphate monoesters. Also has a phosphotransferase activity catalyzing the transfer of low-energy phosphate groups from organic phosphate monoesters to free hydroxyl groups of various organic compounds (Probable).<ref>PMID:14501135</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=1z5u 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=1z5u ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The aphA gene of Salmonella enterica sv. Typhimurium strain MD6001 was cloned in the multicopy plasmid pBluescript SK(-). The recombinant AphA protein was purified to homogeneity. The protein crystallized in the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 112.4, b = 130.2, c = 139.6 A. Consistent with the self-rotation function, there are two tetramers in the asymmetric unit, indicating a solvent content of approximately 54%. The crystals are composed of biologically active AphA molecules.

-	Expression, purification, crystallization and preliminary X-ray diffraction studies of recombinant class B non-specific acid phosphatase of Salmonella typhimurium.,Makde RD, Kumar V, Gupta GD, Jasti J, Singh TP, Mahajan SK Acta Crystallogr D Biol Crystallogr. 2003 Oct;59(Pt 10):1849-52. Epub 2003, Sep 19. PMID:14501135<ref>PMID:14501135</ref>	+	==See Also==
-		+	*[[Acid phosphatase 3D structures\|Acid phosphatase 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 1z5u" style~~=~~"background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Acid phosphatase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Kumar, V~~]]	+	[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
-	[[Category: ~~Makde, R D~~]]	+	[[Category: Kumar V]]
-	[[Category: ~~Class-b bacterial acid phosphatase]]~~	+	[[Category: Makde RD]]
-	~~[[Category: Cyclic-amp complex of apha protein]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metalloenzyme~~]]	+

OCA at 06:08, 28 April 2021

OCA — Wed, 28 Apr 2021 06:08:01 GMT

←Older revision		Revision as of 06:08, 28 April 2021
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	<StructureSection load='1z5u' size='340' side='right'caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1z5u' size='340' side='right'caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1z5g\|1z5g]], [[1z88\|1z88]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [~~http~~://pdbe.org/1z5u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1z5u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1z5u 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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [https://pdbe.org/1z5u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [https://www.ebi.ac.uk/pdbsum/1z5u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z5u ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 09:39, 24 July 2019

OCA — Wed, 24 Jul 2019 09:39:23 GMT

←Older revision		Revision as of 09:39, 24 July 2019
Line 1:		Line 1:

	==Crystal structure of S. typhimurium AphA complexed with cyclic-AMP==		==Crystal structure of S. typhimurium AphA complexed with cyclic-AMP==
-	<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1z5u' size='340' side='right'caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>		<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z5/1z5u_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z5/1z5u_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 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Acid phosphatase]]		[[Category: Acid phosphatase]]
		+	[[Category: Large Structures]]
	[[Category: Kumar, V]]		[[Category: Kumar, V]]
	[[Category: Makde, R D]]		[[Category: Makde, R D]]

OCA at 12:13, 12 October 2017

OCA — Thu, 12 Oct 2017 12:13:42 GMT

←Older revision		Revision as of 12:13, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of S. typhimurium AphA complexed with cyclic-AMP==		==Crystal structure of S. typhimurium AphA complexed with cyclic-AMP==
	<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://pdbe.org/1z5u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u 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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://pdbe.org/1z5u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z5u ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 23:05, 9 February 2016

OCA — Tue, 09 Feb 2016 23:05:21 GMT

←Older revision		Revision as of 23:05, 9 February 2016
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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=1z5u ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:56, 11 September 2015

OCA — Fri, 11 Sep 2015 02:56:49 GMT

←Older revision		Revision as of 02:56, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u 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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://pdbe.org/1z5u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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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 1z5u" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Acid phosphatase]]		[[Category: Acid phosphatase]]
-	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
	[[Category: Kumar, V]]		[[Category: Kumar, V]]
	[[Category: Makde, R D]]		[[Category: Makde, R D]]

OCA at 10:45, 8 January 2015

OCA — Thu, 08 Jan 2015 10:45:42 GMT

←Older revision		Revision as of 10:45, 8 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>		<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u 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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u 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 33:		Line 33:
	[[Category: Acid phosphatase]]		[[Category: Acid phosphatase]]
	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]		[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
-	[[Category: Kumar, V.]]	+	[[Category: Kumar, V]]
-	[[Category: Makde, R D.]]	+	[[Category: Makde, R D]]
	[[Category: Class-b bacterial acid phosphatase]]		[[Category: Class-b bacterial acid phosphatase]]
	[[Category: Cyclic-amp complex of apha protein]]		[[Category: Cyclic-amp complex of apha protein]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Metalloenzyme]]		[[Category: Metalloenzyme]]

OCA at 21:13, 29 September 2014

OCA — Mon, 29 Sep 2014 21:13:04 GMT

←Older revision		Revision as of 21:13, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1z5u.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of S. typhimurium AphA complexed with cyclic-AMP==
		+	<StructureSection load='1z5u' size='340' side='right' caption='[[1z5u]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1z5u]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z5U FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z5g\|1z5g]], [[1z88\|1z88]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90371 Salmonella enterica subsp. enterica serovar Typhimurium])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acid_phosphatase Acid phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.2 3.1.3.2] </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=1z5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z5u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z5u RCSB], [http://www.ebi.ac.uk/pdbsum/1z5u 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/z5/1z5u_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 aphA gene of Salmonella enterica sv. Typhimurium strain MD6001 was cloned in the multicopy plasmid pBluescript SK(-). The recombinant AphA protein was purified to homogeneity. The protein crystallized in the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 112.4, b = 130.2, c = 139.6 A. Consistent with the self-rotation function, there are two tetramers in the asymmetric unit, indicating a solvent content of approximately 54%. The crystals are composed of biologically active AphA molecules.

-	~~{{STRUCTURE_1z5u\| PDB=1z5u \| SCENE= }}~~	+	Expression, purification, crystallization and preliminary X-ray diffraction studies of recombinant class B non-specific acid phosphatase of Salmonella typhimurium.,Makde RD, Kumar V, Gupta GD, Jasti J, Singh TP, Mahajan SK Acta Crystallogr D Biol Crystallogr. 2003 Oct;59(Pt 10):1849-52. Epub 2003, Sep 19. PMID:14501135<ref>PMID:14501135</ref>

-	~~===Crystal structure~~ of S. ~~typhimurium AphA complexed with cyclic-AMP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_14501135}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1z5u]] is a 4 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA].	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:014501135<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Acid phosphatase]]		[[Category: Acid phosphatase]]
	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]		[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]

OCA: Protected "1z5u" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 17:54:05 GMT

Protected "1z5u" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:54, 5 January 2013

OCA at 17:54, 5 January 2013

OCA — Sat, 05 Jan 2013 17:54:03 GMT

←Older revision		Revision as of 17:54, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1z5u.png\|left\|200px]]		[[Image:1z5u.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1z5u", 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_1z5u\| PDB=1z5u \| SCENE= }}		{{STRUCTURE_1z5u\| PDB=1z5u \| SCENE= }}

	===Crystal structure of S. typhimurium AphA complexed with cyclic-AMP===		===Crystal structure of S. typhimurium AphA complexed with cyclic-AMP===

		+	{{ABSTRACT_PUBMED_14501135}}

	==About this Structure==		==About this Structure==
-	~~1Z5U~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Salmonella_typhimurium~~ Salmonella typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA].	+	[[1z5u]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z5U OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~14501135~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:014501135</ref><references group="xtra"/>
	[[Category: Acid phosphatase]]		[[Category: Acid phosphatase]]
-	[[Category: Salmonella typhimurium]]	+	[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
	[[Category: Kumar, V.]]		[[Category: Kumar, V.]]
	[[Category: Makde, R D.]]		[[Category: Makde, R D.]]
	[[Category: Class-b bacterial acid phosphatase]]		[[Category: Class-b bacterial acid phosphatase]]
	[[Category: Cyclic-amp complex of apha protein]]		[[Category: Cyclic-amp complex of apha protein]]
		+	[[Category: Hydrolase]]
	[[Category: Metalloenzyme]]		[[Category: Metalloenzyme]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 13:27:26 2009''