1acz - Revision history

OCA at 15:23, 13 March 2024

OCA — Wed, 13 Mar 2024 15:23:16 GMT

←Older revision		Revision as of 15:23, 13 March 2024
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	==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==		==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==
-	<StructureSection load='1acz' size='340' side='right'caption='[[1acz~~]], [[NMR_Ensembles_of_Models \| 5 NMR models~~]]' scene=''>	+	<StructureSection load='1acz' size='340' side='right'caption='[[1acz]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~A._niger A.~~ niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</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='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https:~~/~~/en.wikipedia.org/wiki/Glucan_1~~,~~4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [https~~:~~//www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900012:beta-cyclodextrin'>PRD_900012</scene></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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [https://pdbe.org/1acz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [https://www.ebi.ac.uk/pdbsum/1acz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1acz 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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [https://pdbe.org/1acz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [https://www.ebi.ac.uk/pdbsum/1acz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1acz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/AMYG_ASPNG AMYG_ASPNG]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1acz 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=1acz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	BACKGROUND: Carbohydrate-binding domains are usually small and physically separate from the catalytic domains of hydrolytic enzymes. Glucoamylase 1 (G1) from Aspergillus niger, an enzyme used widely in the food and brewing industries, contains a granular starch binding domain (SBD) which is separated from the catalytic domain by a semi-rigid linker. The aim of this study was to determine how the SBD binds to starch, and thereby more generally to throw light on the role of carbohydrate-binding domains in the hydrolysis of insoluble polysaccharides. RESULTS: The solution structure of the SBD of A. niger G1 bound to beta-cyclodextrin (betaCD), a cyclic starch analogue, shows that the well-defined beta-sheet structure seen in the free SBD is maintained in the SBD-betaCD complex. The main differences between the free and bound states of the SBD are observed in loop regions, in or near the two starch-binding sites. The two binding sites, each of which binds one molecule of betaCD, are structurally different. Binding site 1 is small and accessible, and its structure changes very little upon ligand binding. Site 2 is longer and undergoes a significant structural change on binding. Part of this site comprises a flexible loop, which appears to allow the SBD to bind to starch strands in a range of orientations. CONCLUSIONS: The two starch-binding sites of the SBD probably differ functionally as well as structurally; site 1 probably acts as the initial starch recognition site, whereas site 2 is involved in specific recognition of appropriate regions of starch. The two starch strands are bound at approximately 90 degrees to each other. This may be functionally important, as it may force starch strands apart thus increasing the hydrolyzable surface, or alternatively it may localize the enzyme to noncrystalline (more hydrolyzable) areas of starch. The region of the SBD where the linker to the catalytic domain is attached is flexible, allowing the catalytic site to access a large surface area of the starch granules.
-
-	Solution structure of the granular starch binding domain of Aspergillus niger glucoamylase bound to beta-cyclodextrin.,Sorimachi K, Le Gal-Coeffet MF, Williamson G, Archer DB, Williamson MP Structure. 1997 May 15;5(5):647-61. PMID:9195884<ref>PMID:9195884</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1acz" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Alpha-glucosidase 3D structures\|Alpha-glucosidase 3D structures]]		*[[Alpha-glucosidase 3D structures\|Alpha-glucosidase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: A. niger]]	+	[[Category: Aspergillus niger]]
-	~~[[Category: Glucan 1,4-alpha-glucosidase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Archer~~, D B~~]]	+	[[Category: Archer DB]]
-	[[Category: Gal-Coeffet, M F~~.Le~~]]	+	[[Category: Le Gal-Coeffet M-F]]
-	[[Category: Sorimachi, K]]	+	[[Category: Sorimachi K]]
-	[[Category: Williamson, G]]	+	[[Category: Williamson G]]
-	[[Category: Williamson~~, M P]]~~	+	[[Category: Williamson MP]]
-	~~[[Category: Alternative splicing]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Glycosidase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Polysaccharide degradation]]~~	+
-	~~[[Category: Starch binding domain~~]]	+

OCA at 09:44, 26 May 2021

OCA — Wed, 26 May 2021 09:44:30 GMT

←Older revision		Revision as of 09:44, 26 May 2021
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	<StructureSection load='1acz' size='340' side='right'caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>		<StructureSection load='1acz' size='340' side='right'caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/A._niger A. niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/A._niger A. niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [~~http~~://pdbe.org/1acz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1acz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1acz 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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [https://pdbe.org/1acz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [https://www.ebi.ac.uk/pdbsum/1acz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1acz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 07:48, 21 August 2019

OCA — Wed, 21 Aug 2019 07:48:06 GMT

←Older revision		Revision as of 07:48, 21 August 2019
Line 1:		Line 1:

	==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==		==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==
-	<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>	+	<StructureSection load='1acz' size='340' side='right'caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._niger A. niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._niger A. niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ac/1acz_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ac/1acz_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 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1acz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1acz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Alpha-glucosidase 3D structures\|Alpha-glucosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: A. niger]]		[[Category: A. niger]]
	[[Category: Glucan 1,4-alpha-glucosidase]]		[[Category: Glucan 1,4-alpha-glucosidase]]
		+	[[Category: Large Structures]]
	[[Category: Archer, D B]]		[[Category: Archer, D B]]
	[[Category: Gal-Coeffet, M F.Le]]		[[Category: Gal-Coeffet, M F.Le]]

OCA at 10:46, 15 November 2017

OCA — Wed, 15 Nov 2017 10:46:35 GMT

←Older revision		Revision as of 10:46, 15 November 2017
Line 1:		Line 1:
		+
	==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==		==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==
	<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>		<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://pdbe.org/1acz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz 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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://pdbe.org/1acz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1acz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	[[Category: Williamson, G]]		[[Category: Williamson, G]]
	[[Category: Williamson, M P]]		[[Category: Williamson, M P]]
		+	[[Category: Alternative splicing]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Glycosidase]]		[[Category: Glycosidase]]

OCA at 22:58, 9 February 2016

OCA — Tue, 09 Feb 2016 22:58:04 GMT

←Older revision		Revision as of 22:58, 9 February 2016
Line 15:		Line 15:
	<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=1acz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:53, 11 September 2015

OCA — Fri, 11 Sep 2015 02:53:36 GMT

←Older revision		Revision as of 02:53, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>		<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aspergillus_niger Aspergillus~~ niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/A._niger A. niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz 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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://pdbe.org/1acz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1acz" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspergillus~~ niger]]	+	[[Category: A. niger]]
	[[Category: Glucan 1,4-alpha-glucosidase]]		[[Category: Glucan 1,4-alpha-glucosidase]]
	[[Category: Archer, D B]]		[[Category: Archer, D B]]

OCA at 10:19, 22 December 2014

OCA — Mon, 22 Dec 2014 10:19:57 GMT

←Older revision		Revision as of 10:19, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz 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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz 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 31:		Line 31:
	[[Category: Aspergillus niger]]		[[Category: Aspergillus niger]]
	[[Category: Glucan 1,4-alpha-glucosidase]]		[[Category: Glucan 1,4-alpha-glucosidase]]
-	[[Category: Archer, D B.]]	+	[[Category: Archer, D B]]
-	[[Category: Gal-Coeffet, M F.Le.]]	+	[[Category: Gal-Coeffet, M F.Le]]
-	[[Category: Sorimachi, K.]]	+	[[Category: Sorimachi, K]]
-	[[Category: Williamson, G.]]	+	[[Category: Williamson, G]]
-	[[Category: Williamson, M P.]]	+	[[Category: Williamson, M P]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Glycosidase]]		[[Category: Glycosidase]]

OCA at 08:36, 23 July 2014

OCA — Wed, 23 Jul 2014 08:36:30 GMT

←Older revision		Revision as of 08:36, 23 July 2014
Line 1:		Line 1:
-	[[~~Image~~:1acz.~~png\|left~~\|200px]]	+	==GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES==
		+	<StructureSection load='1acz' size='340' side='right' caption='[[1acz]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ACZ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_1,4-alpha-glucosidase Glucan 1,4-alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.3 3.2.1.3] </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=1acz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1acz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1acz RCSB], [http://www.ebi.ac.uk/pdbsum/1acz 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/ac/1acz_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 ==
		+	BACKGROUND: Carbohydrate-binding domains are usually small and physically separate from the catalytic domains of hydrolytic enzymes. Glucoamylase 1 (G1) from Aspergillus niger, an enzyme used widely in the food and brewing industries, contains a granular starch binding domain (SBD) which is separated from the catalytic domain by a semi-rigid linker. The aim of this study was to determine how the SBD binds to starch, and thereby more generally to throw light on the role of carbohydrate-binding domains in the hydrolysis of insoluble polysaccharides. RESULTS: The solution structure of the SBD of A. niger G1 bound to beta-cyclodextrin (betaCD), a cyclic starch analogue, shows that the well-defined beta-sheet structure seen in the free SBD is maintained in the SBD-betaCD complex. The main differences between the free and bound states of the SBD are observed in loop regions, in or near the two starch-binding sites. The two binding sites, each of which binds one molecule of betaCD, are structurally different. Binding site 1 is small and accessible, and its structure changes very little upon ligand binding. Site 2 is longer and undergoes a significant structural change on binding. Part of this site comprises a flexible loop, which appears to allow the SBD to bind to starch strands in a range of orientations. CONCLUSIONS: The two starch-binding sites of the SBD probably differ functionally as well as structurally; site 1 probably acts as the initial starch recognition site, whereas site 2 is involved in specific recognition of appropriate regions of starch. The two starch strands are bound at approximately 90 degrees to each other. This may be functionally important, as it may force starch strands apart thus increasing the hydrolyzable surface, or alternatively it may localize the enzyme to noncrystalline (more hydrolyzable) areas of starch. The region of the SBD where the linker to the catalytic domain is attached is flexible, allowing the catalytic site to access a large surface area of the starch granules.

-	~~{{STRUCTURE_1acz\| PDB=1acz \| SCENE= }}~~	+	Solution structure of the granular starch binding domain of Aspergillus niger glucoamylase bound to beta-cyclodextrin.,Sorimachi K, Le Gal-Coeffet MF, Williamson G, Archer DB, Williamson MP Structure. 1997 May 15;5(5):647-61. PMID:9195884<ref>PMID:9195884</ref>

-	~~===GLUCOAMYLASE~~, ~~GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9195884}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1acz]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Aspergillus_niger Aspergillus niger]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:009195884<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aspergillus niger]]		[[Category: Aspergillus niger]]
	[[Category: Glucan 1,4-alpha-glucosidase]]		[[Category: Glucan 1,4-alpha-glucosidase]]

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

OCA — Sun, 21 Oct 2012 12:19:36 GMT

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

←Older revision

Revision as of 12:19, 21 October 2012

OCA at 12:19, 21 October 2012

OCA — Sun, 21 Oct 2012 12:19:33 GMT

←Older revision		Revision as of 12:19, 21 October 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1acz.png\|left\|200px]]		[[Image:1acz.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1acz", 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_1acz\| PDB=1acz \| SCENE= }}		{{STRUCTURE_1acz\| PDB=1acz \| SCENE= }}

	===GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES===		===GLUCOAMYLASE, GRANULAR STARCH-BINDING DOMAIN COMPLEX WITH CYCLODEXTRIN, NMR, 5 STRUCTURES===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9195884}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9195884 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9195884}}		{{ABSTRACT_PUBMED_9195884}}

	==About this Structure==		==About this Structure==
-	~~1ACZ~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA].	+	[[1acz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ACZ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~9195884~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:009195884</ref><references group="xtra"/>
	[[Category: Aspergillus niger]]		[[Category: Aspergillus niger]]
	[[Category: Glucan 1,4-alpha-glucosidase]]		[[Category: Glucan 1,4-alpha-glucosidase]]
Line 31:		Line 19:
	[[Category: Williamson, G.]]		[[Category: Williamson, G.]]
	[[Category: Williamson, M P.]]		[[Category: Williamson, M P.]]
-	[[Category: Alternative splicing]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Glycosidase]]		[[Category: Glycosidase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Polysaccharide degradation]]		[[Category: Polysaccharide degradation]]
-	[[Category: Signal]]
	[[Category: Starch binding domain]]		[[Category: Starch binding domain]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 13:24:47 2009''