3bcd - Revision history

OCA at 14:43, 1 November 2023

2023-11-01T14:43:25Z

← Older revision		Revision as of 14:43, 1 November 2023
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	<StructureSection load='3bcd' size='340' side='right'caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3bcd' size='340' side='right'caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Haloh Haloh~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halothermothrix_orenii_H_168 Halothermothrix orenii H 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.2Å</td></tr>
	~~<tr id~~='~~related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class~~=~~"sblockDat"><div style='overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3bc9\|3bc9]], [[3bcf\|3bcf]]</div>~~</td><~~/tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PRD_900010:alpha-maltotetraose'>PRD_900010</scene>, <scene name='pdbligand=PRD_900015:alpha-cyclodextrin'>PRD_900015</scene></td></tr>
	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">amyb ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 HALOH])</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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [https://pdbe.org/3bcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [https://www.ebi.ac.uk/pdbsum/3bcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcd 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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [https://pdbe.org/3bcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [https://www.ebi.ac.uk/pdbsum/3bcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcd ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/B8CZ54_HALOH B8CZ54_HALOH]
	== 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: Halothermothrix orenii H 168]]
	~~[[Category: Haloh~~]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Divne, C]]		[[Category: Divne C]]
	[[Category: Mijts~~, B N~~]]		[[Category: Mijts BN]]
	[[Category: Patel~~, B K.C~~]]		[[Category: Patel BKC]]
	[[Category: Swaminathan, K]]		[[Category: Swaminathan K]]
	[[Category: Tan, T C]]		[[Category: Tan T-C]]
	~~[[Category: Alpha-cyclodextrin]]~~
	~~[[Category: Halophilic]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Maltotetraose]]~~
	~~[[Category: N domain]]~~
	~~[[Category: Raw starch binding]]~~
	~~[[Category: Thermostable~~]]

OCA at 11:31, 5 January 2022

2022-01-05T11:31:15Z

← Older revision		Revision as of 11:31, 5 January 2022
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	==Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin==		==Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin==
	<StructureSection load='3bcd' size='340' side='right' caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3bcd' size='340' side='right'caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Haloh Haloh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Haloh Haloh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BCD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene~~>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bc9\|3bc9]], [[3bcf\|3bcf]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 HALOH])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 HALOH])</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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [~~http~~://pdbe.org/3bcd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bcd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcd 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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [https://pdbe.org/3bcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [https://www.ebi.ac.uk/pdbsum/3bcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcd ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bc/3bcd_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bc/3bcd_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>
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	</div>		</div>
	<div class="pdbe-citations 3bcd" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3bcd" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Amylase 3D structures\|Amylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Haloh]]		[[Category: Haloh]]
			[[Category: Large Structures]]
	[[Category: Divne, C]]		[[Category: Divne, C]]
	[[Category: Mijts, B N]]		[[Category: Mijts, B N]]

OCA at 08:00, 25 October 2017

2017-10-25T08:00:00Z

← Older revision		Revision as of 08:00, 25 October 2017
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 3bcd" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3bcd" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Amylase\|Amylase]]
	*[[User:Gabriel Pons/Sandbox 2\|User:Gabriel Pons/Sandbox 2]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:33, 11 August 2016

2016-08-11T08:33:27Z

← Older revision		Revision as of 08:33, 11 August 2016
Line 1:		Line 1:

	==Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin==		==Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin==
	<StructureSection load='3bcd' size='340' side='right' caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3bcd' size='340' side='right' caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Halothermothrix_orenii_h_168 Halothermothrix orenii h 168~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haloh Haloh]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 ~~Halothermothrix orenii H 168~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 HALOH])</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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [http://www.ebi.ac.uk/pdbsum/3bcd 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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [http://pdbe.org/3bcd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [http://www.ebi.ac.uk/pdbsum/3bcd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bcd ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3bcd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 3bcd" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: ~~Halothermothrix orenii h 168~~]]		[[Category: Haloh]]
	[[Category: Divne, C]]		[[Category: Divne, C]]
	[[Category: Mijts, B N]]		[[Category: Mijts, B N]]

OCA at 09:26, 20 January 2015

2015-01-20T09:26:16Z

← Older revision		Revision as of 09:26, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii_h_168 Halothermothrix orenii h 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii_h_168 Halothermothrix orenii h 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCD FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 Halothermothrix orenii H 168])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 Halothermothrix orenii H 168])</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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [http://www.ebi.ac.uk/pdbsum/3bcd 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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [http://www.ebi.ac.uk/pdbsum/3bcd 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 30:		Line 30:
	==See Also==		==See Also==
	*[[Amylase\|Amylase]]		*[[Amylase\|Amylase]]
			*[[User:Gabriel Pons/Sandbox 2\|User:Gabriel Pons/Sandbox 2]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 37:
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Halothermothrix orenii h 168]]		[[Category: Halothermothrix orenii h 168]]
	[[Category: Divne, C.]]		[[Category: Divne, C]]
	[[Category: Mijts, B N.]]		[[Category: Mijts, B N]]
	[[Category: Patel, B K.C.]]		[[Category: Patel, B K.C]]
	[[Category: Swaminathan, K.]]		[[Category: Swaminathan, K]]
	[[Category: Tan, T C~~.]]~~		[[Category: Tan, T C]]
	~~[[Category: Alpha-amylase~~]]
	[[Category: Alpha-cyclodextrin]]		[[Category: Alpha-cyclodextrin]]
	[[Category: Halophilic]]		[[Category: Halophilic]]

OCA at 07:50, 29 September 2014

2014-09-29T07:50:05Z

← Older revision		Revision as of 07:50, 29 September 2014
Line 1:		Line 1:
	[[Image:~~3bcd~~.~~png~~\|~~left~~\|~~200px~~]]		==Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin==
			<StructureSection load='3bcd' size='340' side='right' caption='[[3bcd]], [[Resolution\|resolution]] 2.20Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii_h_168 Halothermothrix orenii h 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BCD FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACX:ALPHA-CYCLODEXTRIN+(CYCLOHEXA-AMYLOSE)'>ACX</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3bc9\|3bc9]], [[3bcf\|3bcf]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amyb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373903 Halothermothrix orenii H 168])</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=3bcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bcd RCSB], [http://www.ebi.ac.uk/pdbsum/3bcd 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/bc/3bcd_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 gene for a membrane-bound, halophilic, and thermostable alpha-amylase, AmyB, from Halothermothrix orenii was cloned and sequenced. The crystal structure shows that, in addition to the typical domain organization of family 13 glycoside hydrolases, AmyB carries an additional N-terminal domain (N domain) that forms a large groove--the N-C groove--some 30 A away from the active site. The structure of AmyB with the inhibitor acarbose at 1.35 A resolution shows that a nonasaccharide has been synthesized through successive transglycosylation reactions of acarbose. Unexpectedly, in a complex of wild-type AmyB with alpha-cyclodextrin and maltoheptaose at 2.2 A resolution, a maltotetraose molecule is bound in subsites -1 to +3, spanning the cleavage point at -1/+1, with the -1 glucosyl residue present as a (2)S(o) skew boat. This wild-type AmyB complex was obtained in the presence of a large excess of substrate, a condition under which it is possible to capture Michaelis complexes, which may explain the observed binding across -1/+1 and ring distortion. We observe three methionine side chains that serve as "binding platforms" for glucosyl rings in AmyB, a seemingly rare occurrence in carbohydrate-binding proteins. The structures and results from the biochemical characterization of AmyB and AmyB lacking the N domain show that the N domain increases binding of the enzyme to raw starch. Furthermore, theoretical modeling suggests that the N-C groove can accommodate, spatially and chemically, large substrates such as A-starch.

	~~{{STRUCTURE_3bcd\| PDB=3bcd \| SCENE= }}~~		Crystal structure of the polyextremophilic alpha-amylase AmyB from Halothermothrix orenii: details of a productive enzyme-substrate complex and an N domain with a role in binding raw starch.,Tan TC, Mijts BN, Swaminathan K, Patel BK, Divne C J Mol Biol. 2008 May 9;378(4):852-70. Epub 2008 Feb 29. PMID:18387632<ref>PMID:18387632</ref>

	~~===Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18387632}}~~

	~~==About this Structure==~~
	~~[[3bcd]] is~~ a ~~1 chain structure with sequence from [http://en.wikipedia~~.~~org/wiki/Halothermothrix_orenii_h_168 Halothermothrix orenii h 168]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann.ac.il/oca-bin~~/~~ocashort?id=3BCD OCA].~~

	==See Also==		==See Also==
	*[[~~Alpha-~~Amylase\|~~Alpha-~~Amylase]]		*[[Amylase\|Amylase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:018387632<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Halothermothrix orenii h 168]]		[[Category: Halothermothrix orenii h 168]]

OCA at 18:33, 20 October 2012

2012-10-20T18:33:19Z

← Older revision		Revision as of 18:33, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[3bcd]] is a 1 chain structure ~~of [[Alpha-Amylase]]~~ with sequence from [http://en.wikipedia.org/wiki/~~Halothermothrix_orenii~~ Halothermothrix orenii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA].		[[3bcd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii_h_168 Halothermothrix orenii h 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA].

	==See Also==		==See Also==
Line 16:		Line 16:
	<ref group="xtra">PMID:018387632</ref><references group="xtra"/>		<ref group="xtra">PMID:018387632</ref><references group="xtra"/>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Halothermothrix orenii]]		[[Category: Halothermothrix orenii h 168]]
	[[Category: Divne, C.]]		[[Category: Divne, C.]]
	[[Category: Mijts, B N.]]		[[Category: Mijts, B N.]]

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

2012-07-27T04:27:21Z

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

← Older revision	Revision as of 04:27, 27 July 2012
(No difference)

OCA at 04:27, 27 July 2012

2012-07-27T04:27:18Z

← Older revision		Revision as of 04:27, 27 July 2012
Line 1:		Line 1:
	~~{{Seed}}~~
	[[Image:3bcd.png\|left\|200px]]		[[Image:3bcd.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3bcd", 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_3bcd\| PDB=3bcd \| SCENE= }}		{{STRUCTURE_3bcd\| PDB=3bcd \| SCENE= }}

	===Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin===		===Alpha-amylase B in complex with maltotetraose and alpha-cyclodextrin===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18387632}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18387632 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18387632}}		{{ABSTRACT_PUBMED_18387632}}

	==About this Structure==		==About this Structure==
	~~3BCD~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii Halothermothrix orenii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA].		[[3bcd]] is a 1 chain structure of [[Alpha-Amylase]] with sequence from [http://en.wikipedia.org/wiki/Halothermothrix_orenii Halothermothrix orenii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BCD OCA].

			==See Also==
			*[[Alpha-Amylase\|Alpha-Amylase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18387632~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018387632</ref><references group="xtra"/>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Halothermothrix orenii]]		[[Category: Halothermothrix orenii]]
Line 39:		Line 30:
	[[Category: Raw starch binding]]		[[Category: Raw starch binding]]
	[[Category: Thermostable]]		[[Category: Thermostable]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:56:42 2009''~~

OCA at 18:56, 17 February 2009

2009-02-17T18:56:44Z

← Older revision		Revision as of 18:56, 17 February 2009
Line 20:		Line 20:

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

	==Reference==		==Reference==
	Crystal structure of the polyextremophilic alpha-amylase AmyB from Halothermothrix orenii: details of a productive enzyme-substrate complex and an N domain with a role in binding raw starch., Tan TC, Mijts BN, Swaminathan K, Patel BK, Divne C, J Mol Biol. 2008 May 9;378(4):850-68. Epub 2008 Feb 29. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~18387632 18387632]~~		<ref group="xtra">PMID:18387632</ref><references group="xtra"/>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Halothermothrix orenii]]		[[Category: Halothermothrix orenii]]
	~~[[Category: Single protein]]~~
	[[Category: Divne, C.]]		[[Category: Divne, C.]]
	[[Category: Mijts, B N.]]		[[Category: Mijts, B N.]]
Line 41:		Line 40:
	[[Category: Thermostable]]		[[Category: Thermostable]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 04~~:56:~~18 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:56:42 2009''