2bxy - Revision history

OCA at 11:24, 22 May 2024

OCA — Wed, 22 May 2024 11:24:35 GMT

←Older revision		Revision as of 11:24, 22 May 2024
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	<StructureSection load='2bxy' size='340' side='right'caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2bxy' size='340' side='right'caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Deira Deira~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BME:BETA~~-~~MERCAPTOETHANOL'>BME</scene>~~, ~~<scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-~~1~~,3-DIOL'>TRS</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.75Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PRD_900006:trehalose'>PRD_900006</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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;~~'>~~[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]~~</~~div~~><~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Alpha~~-~~amylase Alpha~~-~~amylase], with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.2.1.~~1 3~~.2.1.1]~~ </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [https://pdbe.org/2bxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [https://www.ebi.ac.uk/pdbsum/2bxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bxy 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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [https://pdbe.org/2bxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [https://www.ebi.ac.uk/pdbsum/2bxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bxy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TREZ_DEIRA TREZ_DEIRA]
	== 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: ~~Alpha-amylase]]~~	+	[[Category: Deinococcus radiodurans R1]]
-	~~[[Category: Deira~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Leiros, H ~~K.S~~]]	+	[[Category: Leiros H-KS]]
-	[[Category: McSweeney~~, S M~~]]	+	[[Category: McSweeney SM]]
-	[[Category: Ravelli~~, R B.G~~]]	+	[[Category: Ravelli RBG]]
-	[[Category: Timmins, J]]	+	[[Category: Timmins J]]
-	~~[[Category: Data collection]]~~	+
-	~~[[Category: Dose-rate]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Radiation damage]]~~	+
-	~~[[Category: Synchrotron radiation~~]]	+

OCA at 13:20, 24 November 2021

OCA — Wed, 24 Nov 2021 13:20:15 GMT

←Older revision		Revision as of 13:20, 24 November 2021
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	<StructureSection load='2bxy' size='340' side='right'caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2bxy' size='340' side='right'caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2BXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG~~</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE~~</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [~~http~~://pdbe.org/2bxy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2bxy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2bxy 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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [https://pdbe.org/2bxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [https://www.ebi.ac.uk/pdbsum/2bxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bxy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:22, 19 February 2020

OCA — Wed, 19 Feb 2020 08:22:06 GMT

←Older revision		Revision as of 08:22, 19 February 2020
Line 1:		Line 1:

	==Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection==		==Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection==
-	<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='2bxy' size='340' side='right'caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
Line 35:		Line 35:
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Deira]]		[[Category: Deira]]
		+	[[Category: Large Structures]]
	[[Category: Leiros, H K.S]]		[[Category: Leiros, H K.S]]
	[[Category: McSweeney, S M]]		[[Category: McSweeney, S M]]

OCA at 06:55, 16 May 2018

OCA — Wed, 16 May 2018 06:55:41 GMT

←Older revision		Revision as of 06:55, 16 May 2018
Line 1:		Line 1:
-	==~~IS RADIATION DAMAGE DEPENDENT ON THE DOSE~~-~~RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION~~==	+
		+	==Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection==
	<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://pdbe.org/2bxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy 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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://pdbe.org/2bxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2bxy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/2bxy_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/2bxy_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 35:		Line 36:
	[[Category: Deira]]		[[Category: Deira]]
	[[Category: Leiros, H K.S]]		[[Category: Leiros, H K.S]]
-	[[Category: ~~Mcsweeney~~, S M]]	+	[[Category: McSweeney, S M]]
	[[Category: Ravelli, R B.G]]		[[Category: Ravelli, R B.G]]
	[[Category: Timmins, J]]		[[Category: Timmins, J]]

OCA at 01:46, 8 February 2016

OCA — Mon, 08 Feb 2016 01:46:30 GMT

←Older revision		Revision as of 01:46, 8 February 2016
Line 17:		Line 17:
	<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=2bxy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:43, 10 September 2015

OCA — Thu, 10 Sep 2015 06:43:22 GMT

←Older revision		Revision as of 06:43, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Deinococcus_radiodurans Deinococcus radiodurans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deira Deira]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy 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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://pdbe.org/2bxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	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 2bxy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
-	[[Category: ~~Deinococcus radiodurans~~]]	+	[[Category: Deira]]
	[[Category: Leiros, H K.S]]		[[Category: Leiros, H K.S]]
	[[Category: Mcsweeney, S M]]		[[Category: Mcsweeney, S M]]

OCA at 18:43, 15 January 2015

OCA — Thu, 15 Jan 2015 18:43:39 GMT

←Older revision		Revision as of 18:43, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy 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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy 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: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]
-	[[Category: Leiros, H K.S.]]	+	[[Category: Leiros, H K.S]]
-	[[Category: Mcsweeney, S M.]]	+	[[Category: Mcsweeney, S M]]
-	[[Category: Ravelli, R B.G.]]	+	[[Category: Ravelli, R B.G]]
-	[[Category: Timmins, J.]]	+	[[Category: Timmins, J]]
	[[Category: Data collection]]		[[Category: Data collection]]
	[[Category: Dose-rate]]		[[Category: Dose-rate]]

OCA at 03:07, 30 September 2014

OCA — Tue, 30 Sep 2014 03:07:32 GMT

←Older revision		Revision as of 03:07, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2bxy.~~png~~\|~~left~~\|200px]]	+	==IS RADIATION DAMAGE DEPENDENT ON THE DOSE-RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION==
		+	<StructureSection load='2bxy' size='340' side='right' caption='[[2bxy]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BXY FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRE:TREHALOSE'>TRE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bxz\|2bxz]], [[2by0\|2by0]], [[2by1\|2by1]], [[2by2\|2by2]], [[2by3\|2by3]], [[2by5\|2by5]], [[2by6\|2by6]], [[2by7\|2by7]], [[2by8\|2by8]], [[2by9\|2by9]], [[2bya\|2bya]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </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=2bxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bxy RCSB], [http://www.ebi.ac.uk/pdbsum/2bxy 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/2bxy_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 ==
		+	This paper focuses on the radiation-damage effects when applying the same total X-ray dose to protein crystals at different dose rates. These experiments have been performed on both a selenomethionated protein and on bovine trypsin using dose rates that span nearly two orders of magnitude. The results show no clear dose-rate effect on the global indicators of radiation damage, but a small measurable dose-rate effect could be found when studying specific radiation damage. It is hypothesized that this observed dose-rate effect relates to differences in the steady-state free-radical concentration.

-	~~{{STRUCTURE_2bxy\| PDB=2bxy \| SCENE= }}~~	+	Is radiation damage dependent on the dose rate used during macromolecular crystallography data collection?,Leiros HK, Timmins J, Ravelli RB, McSweeney SM Acta Crystallogr D Biol Crystallogr. 2006 Feb;62(Pt 2):125-32. Epub 2006, Jan 18. PMID:16421442<ref>PMID:16421442</ref>

-	~~===IS RADIATION DAMAGE DEPENDENT ON THE DOSE-RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16421442}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2bxy]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016421442<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]

OCA: Protected "2bxy" [edit=sysop:move=sysop]

OCA — Sun, 06 Jan 2013 12:17:14 GMT

Protected "2bxy" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:17, 6 January 2013

OCA at 12:17, 6 January 2013

OCA — Sun, 06 Jan 2013 12:17:11 GMT

←Older revision		Revision as of 12:17, 6 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2bxy.png\|left\|200px]]		[[Image:2bxy.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2bxy", 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_2bxy\| PDB=2bxy \| SCENE= }}		{{STRUCTURE_2bxy\| PDB=2bxy \| SCENE= }}

	===IS RADIATION DAMAGE DEPENDENT ON THE DOSE-RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION===		===IS RADIATION DAMAGE DEPENDENT ON THE DOSE-RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16421442}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16421442 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16421442}}		{{ABSTRACT_PUBMED_16421442}}

	==About this Structure==		==About this Structure==
-	~~2BXY~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA].	+	[[2bxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BXY OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16421442~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016421442</ref><references group="xtra"/>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]
Line 35:		Line 23:
	[[Category: Radiation damage]]		[[Category: Radiation damage]]
	[[Category: Synchrotron radiation]]		[[Category: Synchrotron radiation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:55:04 2009''