1xyd - Revision history

OCA at 07:58, 15 May 2024

OCA — Wed, 15 May 2024 07:58:51 GMT

←Older revision		Revision as of 07:58, 15 May 2024
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	==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==		==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==
-	<StructureSection load='1xyd' size='340' side='right'caption='[[1xyd~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='1xyd' size='340' side='right'caption='[[1xyd]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XYD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">S100b ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [https://pdbe.org/1xyd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [https://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [https://pdbe.org/1xyd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [https://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/S100B_RAT S100B_RAT]] Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization.<ref>PMID:19910580</ref> <ref>PMID:20351179</ref>	+	[https://www.uniprot.org/uniprot/S100B_RAT S100B_RAT] Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization.<ref>PMID:19910580</ref> <ref>PMID:20351179</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Varney, K M~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Weber, D J~~]]	+	[[Category: Varney KM]]
-	[[Category: ~~Wilder, P T~~]]	+	[[Category: Weber DJ]]
-	[[Category: ~~Metal binding protein~~]]	+	[[Category: Wilder PT]]

OCA at 07:10, 2 March 2022

OCA — Wed, 02 Mar 2022 07:10:24 GMT

←Older revision		Revision as of 07:10, 2 March 2022
Line 3:		Line 3:
	<StructureSection load='1xyd' size='340' side='right'caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1xyd' size='340' side='right'caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XYD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</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=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [~~http~~://pdbe.org/1xyd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [https://pdbe.org/1xyd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [https://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/S100B_RAT S100B_RAT]] Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization.<ref>PMID:19910580</ref> <ref>PMID:20351179</ref>	+	[[https://www.uniprot.org/uniprot/S100B_RAT S100B_RAT]] Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization.<ref>PMID:19910580</ref> <ref>PMID:20351179</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:25, 6 January 2021

OCA — Wed, 06 Jan 2021 10:25:59 GMT

←Older revision		Revision as of 10:25, 6 January 2021
Line 1:		Line 1:

	==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==		==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==
-	<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='1xyd' size='340' side='right'caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XYD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://pdbe.org/1xyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://pdbe.org/1xyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	==See Also==		==See Also==
-	*[[S100 ~~protein~~\|S100 ~~protein~~]]	+	*[[S100 proteins 3D structures\|S100 proteins 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Varney, K M]]		[[Category: Varney, K M]]
	[[Category: Weber, D J]]		[[Category: Weber, D J]]
	[[Category: Wilder, P T]]		[[Category: Wilder, P T]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 07:23, 18 April 2018

OCA — Wed, 18 Apr 2018 07:23:20 GMT

←Older revision		Revision as of 07:23, 18 April 2018
Line 1:		Line 1:
		+
	==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==		==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==
	<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://pdbe.org/1xyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://pdbe.org/1xyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xyd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xy/1xyd_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xy/1xyd_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 20:27, 8 February 2016

OCA — Mon, 08 Feb 2016 20:27:08 GMT

←Older revision		Revision as of 20:27, 8 February 2016
Line 18:		Line 18:
	<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=1xyd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:07, 10 September 2015

OCA — Thu, 10 Sep 2015 15:07:09 GMT

←Older revision		Revision as of 15:07, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XYD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</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=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://pdbe.org/1xyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 1xyd" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Varney, K M]]		[[Category: Varney, K M]]
	[[Category: Weber, D J]]		[[Category: Weber, D J]]
	[[Category: Wilder, P T]]		[[Category: Wilder, P T]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 01:56, 25 December 2014

OCA — Thu, 25 Dec 2014 01:56:15 GMT

←Older revision		Revision as of 01:56, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XYD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd 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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/S100B_RAT S100B_RAT]] Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization.<ref>PMID:19910580</ref> <ref>PMID:20351179</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Varney, K M.]]	+	[[Category: Varney, K M]]
-	[[Category: Weber, D J.]]	+	[[Category: Weber, D J]]
-	[[Category: Wilder, P T.]]	+	[[Category: Wilder, P T]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 21:31, 29 September 2014

OCA — Mon, 29 Sep 2014 21:31:51 GMT

←Older revision		Revision as of 21:31, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1xyd.~~png~~\|~~left~~\|200px]]	+	==NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures==
		+	<StructureSection load='1xyd' size='340' side='right' caption='[[1xyd]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XYD 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=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qlk\|1qlk]], [[1b4c\|1b4c]], [[1dt7\|1dt7]], [[1mwn\|1mwn]], [[3psr\|3psr]], [[1odb\|1odb]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S100b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=1xyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xyd RCSB], [http://www.ebi.ac.uk/pdbsum/1xyd 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/xy/1xyd_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 EF-hand calcium-binding protein S100B also binds one zinc ion per subunit with a relatively high affinity (K(d) approximately 90 nM) [Wilder et al., (2003) Biochemistry 42, 13410-13421]. In this study, the structural characterization of zinc binding to calcium-loaded S100B was examined using high-resolution NMR techniques, including structural characterization of this complex in solution at atomic resolution. As with other S100 protein structures, the quaternary structure of Zn(2+)-Ca(2+)-bound S100B was found to be dimeric with helices H1, H1', H4, and H4' forming an X-type four-helix bundle at the dimer interface. NMR data together with mutational analyses are consistent with Zn(2+) coordination arising from His-15 and His-25 of one S100B subunit and from His-85 and Glu-89 of the other subunit. The addition of Zn(2+) was also found to extend helices H4 and H4' three to four residues similar to what was previously observed with the binding of target proteins to S100B. Furthermore, a kink in helix 4 was observed in Zn(2+)-Ca(2+)-bound S100B that is not in Ca(2+)-bound S100B. These structural changes upon Zn(2+)-binding could explain the 5-fold increase in affinity that Zn(2+)-Ca(2+)-bound S100B has for peptide targets such as the TRTK peptide versus Ca(2+)-bound S100B. There are also changes in the relative positioning of the two EF-hand calcium-binding domains and the respective helices comprising these EF-hands. Changes in conformation such as these could contribute to the order of magnitude higher affinity that S100B has for calcium in the presence of Zn(2+).

-	~~{{STRUCTURE_1xyd\| PDB=1xyd \| SCENE= }}~~	+	Solution structure of zinc- and calcium-bound rat S100B as determined by nuclear magnetic resonance spectroscopy.,Wilder PT, Varney KM, Weiss MB, Gitti RK, Weber DJ Biochemistry. 2005 Apr 19;44(15):5690-702. PMID:15823027<ref>PMID:15823027</ref>

-	~~===NMR Solution Structure of Rat Zinc-Calcium-S100B~~, ~~20 Structures===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_15823027}}~~	+	==See Also==
-		+	*[[S100 protein\|S100 protein]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1xyd~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:015823027<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Varney, K M.]]		[[Category: Varney, K M.]]

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

OCA — Sat, 05 Jan 2013 12:49:51 GMT

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

←Older revision

Revision as of 12:49, 5 January 2013

OCA at 12:49, 5 January 2013

OCA — Sat, 05 Jan 2013 12:49:48 GMT

←Older revision		Revision as of 12:49, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1xyd.png\|left\|200px]]		[[Image:1xyd.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1xyd", 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_1xyd\| PDB=1xyd \| SCENE= }}		{{STRUCTURE_1xyd\| PDB=1xyd \| SCENE= }}

	===NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures===		===NMR Solution Structure of Rat Zinc-Calcium-S100B, 20 Structures===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15823027}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15823027 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15823027}}		{{ABSTRACT_PUBMED_15823027}}

	==About this Structure==		==About this Structure==
-	~~1XYD~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA].	+	[[1xyd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XYD OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15823027~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015823027</ref><references group="xtra"/>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Varney, K M.]]		[[Category: Varney, K M.]]
Line 29:		Line 17:
	[[Category: Wilder, P T.]]		[[Category: Wilder, P T.]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 02:51:32 2009''