3bxi - Revision history

OCA at 14:52, 1 November 2023

OCA — Wed, 01 Nov 2023 14:52:50 GMT

←Older revision		Revision as of 14:52, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3bxi' size='340' side='right'caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='3bxi' size='340' side='right'caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3BXI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BXI 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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=~~NO3~~:~~NITRATE+ION~~'>~~NO3~~</scene>, <scene name='pdbligand=~~OSM~~:1-~~(OXIDOSULFANYL)METHANAMINE~~'>~~OSM~~</scene>, <scene name='pdbligand=~~SCN~~:~~THIOCYANATE~~+ION'>~~SCN~~</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA~~-~~D-MANNOSE~~'>~~MAN~~</scene>, <scene name='pdbligand=~~NAG~~:~~N-ACETYL-D-GLUCOSAMINE~~'>~~NAG~~</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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene~~></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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [https://pdbe.org/3bxi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [https://www.ebi.ac.uk/pdbsum/3bxi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bxi ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [~~http~~://pdbe.org/3bxi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bxi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bxi ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PERL_BOVIN PERL_BOVIN]] LPO is an antimicrobial agent. It is thought to help protect the udder from infection and promote growth in newborn calves.	+	[https://www.uniprot.org/uniprot/PERL_BOVIN PERL_BOVIN] LPO is an antimicrobial agent. It is thought to help protect the udder from infection and promote growth in newborn calves.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 40:		Line 38:
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Peroxidase]]~~	+	[[Category: Kaur P]]
-	[[Category: Kaur, P]]	+	[[Category: Sharma S]]
-	[[Category: Sharma, S]]	+	[[Category: Shin K]]
-	[[Category: Shin, K]]	+	[[Category: Singh AK]]
-	[[Category: Singh~~, A K~~]]	+	[[Category: Singh N]]
-	[[Category: Singh, N]]	+	[[Category: Singh TP]]
-	[[Category: Singh~~, T P~~]]	+	[[Category: Srinivasan A]]
-	[[Category: Srinivasan, A]]	+	[[Category: Takase M]]
-	[[Category: Takase, M]]	+
-	~~[[Category: Antibacterial]]~~	+
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Antimicrobial]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Hydrogen peroxide]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Secreted~~]]	+

OCA at 10:22, 12 August 2020

OCA — Wed, 12 Aug 2020 10:22:44 GMT

←Older revision		Revision as of 10:22, 12 August 2020
Line 1:		Line 1:

	==Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution==		==Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution==
-	<StructureSection load='3bxi' size='340' side='right' caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='3bxi' size='340' side='right'caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BXI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3BXI 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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA-D-MANNOSE~~'>~~MAN~~</scene>, <scene name='pdbligand=~~NAG~~:N-~~ACETYL-D-GLUCOSAMINE~~'>~~NAG~~</scene>, <scene name='pdbligand=~~NO3~~:~~NITRATE~~+ION'>~~NO3~~</scene>, <scene name='pdbligand=~~OSM~~:1-~~(OXIDOSULFANYL)METHANAMINE~~'>~~OSM~~</scene>, <scene name='pdbligand=~~SCN~~:~~THIOCYANATE+ION~~'>~~SCN~~</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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://pdbe.org/3bxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bxi ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://pdbe.org/3bxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bxi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 39:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
		+	[[Category: Large Structures]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
	[[Category: Kaur, P]]		[[Category: Kaur, P]]

OCA at 13:24, 7 November 2018

OCA — Wed, 07 Nov 2018 13:24:27 GMT

←Older revision		Revision as of 13:24, 7 November 2018
Line 1:		Line 1:
		+
	==Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution==		==Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution==
	<StructureSection load='3bxi' size='340' side='right' caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='3bxi' size='340' side='right' caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BXI FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BXI 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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=~~NO3~~:~~NITRATE+ION~~'>~~NO3~~</scene>, <scene name='pdbligand=~~OSM~~:1-~~(OXIDOSULFANYL)METHANAMINE~~'>~~OSM~~</scene>, <scene name='pdbligand=~~SCN~~:~~THIOCYANATE~~+ION'>~~SCN~~</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA~~-~~D-MANNOSE~~'>~~MAN~~</scene>, <scene name='pdbligand=~~NAG~~:~~N-ACETYL-D-GLUCOSAMINE~~'>~~NAG~~</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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://pdbe.org/3bxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi 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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://pdbe.org/3bxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bxi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/3bxi_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/3bxi_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>

OCA at 07:42, 10 February 2016

OCA — Wed, 10 Feb 2016 07:42:40 GMT

←Older revision		Revision as of 07:42, 10 February 2016
Line 7:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi 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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://pdbe.org/3bxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=3bxi ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 3bxi" style="background-color:#fffaf0;"></div>

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

OCA at 12:47, 25 December 2014

OCA — Thu, 25 Dec 2014 12:47:34 GMT

←Older revision		Revision as of 12:47, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BXI FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BXI FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene><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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi 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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PERL_BOVIN PERL_BOVIN]] LPO is an antimicrobial agent. It is thought to help protect the udder from infection and promote growth in newborn calves.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
-	[[Category: Kaur, P.]]	+	[[Category: Kaur, P]]
-	[[Category: Sharma, S.]]	+	[[Category: Sharma, S]]
-	[[Category: Shin, K.]]	+	[[Category: Shin, K]]
-	[[Category: Singh, A K.]]	+	[[Category: Singh, A K]]
-	[[Category: Singh, N.]]	+	[[Category: Singh, N]]
-	[[Category: Singh, T P.]]	+	[[Category: Singh, T P]]
-	[[Category: Srinivasan, A.]]	+	[[Category: Srinivasan, A]]
-	[[Category: Takase, M.]]	+	[[Category: Takase, M]]
	[[Category: Antibacterial]]		[[Category: Antibacterial]]
	[[Category: Antibiotic]]		[[Category: Antibiotic]]
Line 53:		Line 55:
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Peroxidase]]
	[[Category: Secreted]]		[[Category: Secreted]]

OCA at 09:41, 29 September 2014

OCA — Mon, 29 Sep 2014 09:41:00 GMT

←Older revision		Revision as of 09:41, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3bxi.~~png~~\|~~left~~\|200px]]	+	==Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution==
		+	<StructureSection load='3bxi' size='340' side='right' caption='[[3bxi]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BXI FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=OSM:1-(OXIDOSULFANYL)METHANAMINE'>OSM</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1cxp\|1cxp]], [[2ojv\|2ojv]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7] </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=3bxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bxi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bxi RCSB], [http://www.ebi.ac.uk/pdbsum/3bxi 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/bx/3bxi_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 ==
		+	To the best of our knowledge, this is the first report on the structure of product-inhibited mammalian peroxidase. Lactoperoxidase is a heme containing an enzyme that catalyzes the inactivation of a wide range of microorganisms. In the presence of hydrogen peroxide, it preferentially converts thiocyanate ion into a toxic hypothiocyanate ion. Samples of bovine lactoperoxidase containing thiocyanate (SCN(-)) and hypothiocyanate (OSCN(-)) ions were purified and crystallized. The structure was determined at 2.3-A resolution and refined to R(cryst) and R(free) factors of 0.184 and 0.221, respectively. The determination of structure revealed the presence of an OSCN(-) ion at the distal heme cavity. The presence of OSCN(-) ions in crystal samples was also confirmed by chemical and spectroscopic analysis. The OSCN(-) ion interacts with the heme iron, Gln-105 N(epsilon1), His-109 N(epsilon2), and a water molecule W96. The sulfur atom of the OSCN(-) ion forms a hypervalent bond with a nitrogen atom of the pyrrole ring D of the heme moiety at an S-N distance of 2.8 A. The heme group is covalently bound to the protein through two ester linkages involving carboxylic groups of Glu-258 and Asp-108 and the modified methyl groups of pyrrole rings A and C, respectively. The heme moiety is significantly distorted from planarity, whereas pyrrole rings A, B, C, and D are essentially planar. The iron atom is displaced by approximately 0.2 A from the plane of the heme group toward the proximal site. The substrate channel resembles a long tunnel whose inner walls contain predominantly aromatic residues such as Phe-113, Phe-239, Phe-254, Phe-380, Phe-381, Phe-422, and Pro-424. A phosphorylated Ser-198 was evident at the surface, in the proximity of the calcium-binding channel.

-	~~{{STRUCTURE_3bxi\| PDB=3bxi \| SCENE= }}~~	+	Inhibition of lactoperoxidase by its own catalytic product: crystal structure of the hypothiocyanate-inhibited bovine lactoperoxidase at 2.3-A resolution.,Singh AK, Singh N, Sharma S, Shin K, Takase M, Kaur P, Srinivasan A, Singh TP Biophys J. 2009 Jan;96(2):646-54. PMID:19167310<ref>PMID:19167310</ref>

-	~~===Structure~~ of the ~~complex~~ of ~~bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2~~.~~3A resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19167310}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3bxi]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA].~~	+

	==See Also==		==See Also==
	*[[Lactoperoxidase\|Lactoperoxidase]]		*[[Lactoperoxidase\|Lactoperoxidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019167310<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]

OCA at 16:50, 20 October 2012

OCA — Sat, 20 Oct 2012 16:50:50 GMT

←Older revision		Revision as of 16:50, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3bxi]] is a 1 chain structure ~~of [[Lactoperoxidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA].	+	[[3bxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA].

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

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

OCA — Thu, 26 Jul 2012 23:00:44 GMT

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

←Older revision

Revision as of 23:00, 26 July 2012

OCA at 23:00, 26 July 2012

OCA — Thu, 26 Jul 2012 23:00:42 GMT

←Older revision		Revision as of 23:00, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3bxi.png\|left\|200px]]		[[Image:3bxi.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3bxi", 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_3bxi\| PDB=3bxi \| SCENE= }}		{{STRUCTURE_3bxi\| PDB=3bxi \| SCENE= }}

	===Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution===		===Structure of the complex of bovine lactoperoxidase with its catalyzed product hypothiocyanate ion at 2.3A resolution===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19167310}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19167310 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19167310}}		{{ABSTRACT_PUBMED_19167310}}

	==About this Structure==		==About this Structure==
-	~~3BXI~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA].	+	[[3bxi]] is a 1 chain structure of [[Lactoperoxidase]] with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BXI OCA].
		+
		+	==See Also==
		+	*[[Lactoperoxidase\|Lactoperoxidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19167310~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019167310</ref><references group="xtra"/>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
Line 37:		Line 28:
	[[Category: Antibiotic]]		[[Category: Antibiotic]]
	[[Category: Antimicrobial]]		[[Category: Antimicrobial]]
-	[[Category: Calcium]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Heme]]		[[Category: Heme]]
Line 46:		Line 36:
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
	[[Category: Secreted]]		[[Category: Secreted]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:32:38 2010''

OCA at 08:23, 22 September 2010

OCA — Wed, 22 Sep 2010 08:23:40 GMT

←Older revision		Revision as of 08:23, 22 September 2010
Line 20:		Line 20:

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

	==Reference==		==Reference==
-	Inhibition of lactoperoxidase by its own catalytic product: crystal structure of the hypothiocyanate-inhibited bovine lactoperoxidase at 2.3-A resolution., Singh AK, Singh N, Sharma S, Shin K, Takase M, Kaur P, Srinivasan A, Singh TP, Biophys J. 2009 Jan;96(2):646-54. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/19167310 19167310]~~	+	<ref group="xtra">PMID:19167310</ref><references group="xtra"/>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
-	[[Category: ~~Single protein~~]]	+	[[Category: Kaur, P.]]
-	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]	+	[[Category: Sharma, S.]]
		+	[[Category: Shin, K.]]
		+	[[Category: Singh, A K.]]
		+	[[Category: Singh, N.]]
		+	[[Category: Singh, T P.]]
		+	[[Category: Srinivasan, A.]]
		+	[[Category: Takase, M.]]
	[[Category: Antibacterial]]		[[Category: Antibacterial]]
	[[Category: Antibiotic]]		[[Category: Antibiotic]]
Line 41:		Line 47:
	[[Category: Secreted]]		[[Category: Secreted]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 20~~:46:~~36 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:32:38 2010''