1ji1 - Revision history

OCA at 13:24, 13 March 2024

2024-03-13T13:24:41Z

← Older revision		Revision as of 13:24, 13 March 2024
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	<StructureSection load='1ji1' size='340' side='right'caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ji1' size='340' side='right'caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43649 Atcc 43649~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~</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]] 1.6Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1ji2\|1ji2]]</div></td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [https://pdbe.org/1ji1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji1 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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [https://pdbe.org/1ji1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.		[https://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.
	== 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=1ji1 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=1ji1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The X-ray crystal structures of Thermoactinomyces vulgaris R-47 alpha-amylase 1 (TVAI) and alpha-amylase 2 (TVAII) have been determined at 1.6 A and 2.3 A resolution, respectively. The structures of TVAI and TVAII have been refined, R-factor of 0.182 (R(free)=0.206) and 0.179 (0.224), respectively, with good chemical geometries. Both TVAI and TVAII have four domains, N, A, B and C, and all very similar in structure. However, there are some differences in the structures between them. Domain N of TVAI interacts strongly with domains A and B, giving a spherical shape structure to the enzyme, while domain N of TVAII is isolated from the other domains, which leads to the formation of a dimer. TVAI has three bound Ca ions, whereas TVAII has only one. TVAI has eight extra loops compared to TVAII, while TVAII has two extra loops compared to TVAI. TVAI can hydrolyze substrates more efficiently than TVAII with a high molecular mass such as starch, while TVAII is much more active against cyclodextrins than TVAI and other alpha-amylases. A structural comparison of the active sites has clearly revealed this difference in substrate specificity.

	Crystal structures and structural comparison of Thermoactinomyces vulgaris R-47 alpha-amylase 1 (TVAI) at 1.6 A resolution and alpha-amylase 2 (TVAII) at 2.3 A resolution.,Kamitori S, Abe A, Ohtaki A, Kaji A, Tonozuka T, Sakano Y J Mol Biol. 2002 Apr 26;318(2):443-53. PMID:12051850<ref>PMID:12051850</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 1ji1" style="background-color:#fffaf0;"></div>~~

	==See Also==		==See Also==
	*[[Amylase 3D structures\|Amylase 3D structures]]		*[[Amylase 3D structures\|Amylase 3D structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Alpha-amylase]]~~
	~~[[Category: Atcc 43649]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Abe, A]]		[[Category: Thermoactinomyces vulgaris]]
	[[Category: Kaji, A]]		[[Category: Abe A]]
	[[Category: Kamitori, S]]		[[Category: Kaji A]]
	[[Category: Ohtaki, A]]		[[Category: Kamitori S]]
	[[Category: Sakano, Y]]		[[Category: Ohtaki A]]
	[[Category: Tonozuka, T]]		[[Category: Sakano Y]]
	~~[[Category: Beta/alpha barrel]]~~		[[Category: Tonozuka T]]
	~~[[Category: Hydrolase~~]]

OCA at 06:41, 11 August 2021

2021-08-11T06:41:03Z

← Older revision		Revision as of 06:41, 11 August 2021
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	<StructureSection load='1ji1' size='340' side='right'caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ji1' size='340' side='right'caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ji2\|1ji2]]</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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [~~http~~://pdbe.org/1ji1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ji1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji1 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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [https://pdbe.org/1ji1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.		[[https://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 09:43, 6 November 2019

2019-11-06T09:43:58Z

← Older revision		Revision as of 09:43, 6 November 2019
Line 1:		Line 1:

	==Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1==		==Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1==
	<StructureSection load='1ji1' size='340' side='right' caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ji1' size='340' side='right'caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1ji1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1ji1" 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: Atcc 43649]]		[[Category: Atcc 43649]]
			[[Category: Large Structures]]
	[[Category: Abe, A]]		[[Category: Abe, A]]
	[[Category: Kaji, A]]		[[Category: Kaji, A]]

OCA at 09:19, 17 January 2018

2018-01-17T09:19:43Z

← Older revision		Revision as of 09:19, 17 January 2018
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	==Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1==		==Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1==
	<StructureSection load='1ji1' size='340' side='right' caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ji1' size='340' side='right' caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://pdbe.org/1ji1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://pdbe.org/1ji1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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/ji/1ji1_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ji/1ji1_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 1ji1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1ji1" 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 01:42, 8 February 2016

2016-02-08T01:42:54Z

← Older revision		Revision as of 01:42, 8 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ji1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:42, 10 September 2015

2015-09-10T06:42:05Z

← Older revision		Revision as of 06:42, 10 September 2015
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://pdbe.org/1ji1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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 1ji1" style="background-color:#fffaf0;"></div>

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

OCA at 19:38, 24 December 2014

2014-12-24T19:38:14Z

← Older revision		Revision as of 19:38, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 31:
	==See Also==		==See Also==
	*[[Amylase\|Amylase]]		*[[Amylase\|Amylase]]
			*[[User:Gabriel Pons/Sandbox 2\|User:Gabriel Pons/Sandbox 2]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Atcc 43649]]		[[Category: Atcc 43649]]
	[[Category: Abe, A.]]		[[Category: Abe, A]]
	[[Category: Kaji, A.]]		[[Category: Kaji, A]]
	[[Category: Kamitori, S.]]		[[Category: Kamitori, S]]
	[[Category: Ohtaki, A.]]		[[Category: Ohtaki, A]]
	[[Category: Sakano, Y.]]		[[Category: Sakano, Y]]
	[[Category: Tonozuka, T.]]		[[Category: Tonozuka, T]]
	[[Category: Beta/alpha barrel]]		[[Category: Beta/alpha barrel]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 10:08, 3 October 2014

2014-10-03T10:08:22Z

← Older revision		Revision as of 10:08, 3 October 2014
Line 1:		Line 1:
	~~{{STRUCTURE_1ji1~~\| ~~PDB~~=1ji1 \| ~~SCENE~~= }}		==Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1==
	===~~Crystal Structure Analysis~~ of Thermoactinomyces vulgaris R-47 alpha-~~Amylase~~ 1===		<StructureSection load='1ji1' size='340' side='right' caption='[[1ji1]], [[Resolution\|resolution]] 1.60Å' scene=''>
	~~{{ABSTRACT_PUBMED_12051850}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI1 FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ji2\|1ji2]]</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=1ji1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji1 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji1 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/ji/1ji1_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 X-ray crystal structures of Thermoactinomyces vulgaris R-47 alpha-amylase 1 (TVAI) and alpha-amylase 2 (TVAII) have been determined at 1.6 A and 2.3 A resolution, respectively. The structures of TVAI and TVAII have been refined, R-factor of 0.182 (R(free)=0.206) and 0.179 (0.224), respectively, with good chemical geometries. Both TVAI and TVAII have four domains, N, A, B and C, and all very similar in structure. However, there are some differences in the structures between them. Domain N of TVAI interacts strongly with domains A and B, giving a spherical shape structure to the enzyme, while domain N of TVAII is isolated from the other domains, which leads to the formation of a dimer. TVAI has three bound Ca ions, whereas TVAII has only one. TVAI has eight extra loops compared to TVAII, while TVAII has two extra loops compared to TVAI. TVAI can hydrolyze substrates more efficiently than TVAII with a high molecular mass such as starch, while TVAII is much more active against cyclodextrins than TVAI and other alpha-amylases. A structural comparison of the active sites has clearly revealed this difference in substrate specificity.

	~~==Function==~~		Crystal structures and structural comparison of Thermoactinomyces vulgaris R-47 alpha-amylase 1 (TVAI) at 1.6 A resolution and alpha-amylase 2 (TVAII) at 2.3 A resolution.,Kamitori S, Abe A, Ohtaki A, Kaji A, Tonozuka T, Sakano Y J Mol Biol. 2002 Apr 26;318(2):443-53. PMID:12051850<ref>PMID:12051850</ref>
	~~[[http://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis~~ of 1~~,4-~~alpha-~~glucosidic linkages in pullulan to form panose~~. ~~Also hydrolyzes cyclodextrins~~.

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[1ji1]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Atcc_43649 Atcc 43649]~~. ~~Full crystallographic information is available from [http:/~~/~~oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA].~~		</div>

	==See Also==		==See Also==
	*[[Amylase\|Amylase]]		*[[Amylase\|Amylase]]
			== References ==
	==~~Reference~~==		<references/>
	~~<ref group="xtra">PMID:012051850</ref>~~<references ~~group="xtra"~~/><~~references~~/>		__TOC__
			</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: Atcc 43649]]		[[Category: Atcc 43649]]

OCA at 08:24, 16 April 2014

2014-04-16T08:24:18Z

← Older revision		Revision as of 08:24, 16 April 2014
Line 1:		Line 1:
	~~[[Image:1ji1.png\|left\|200px]]~~

	{{STRUCTURE_1ji1\| PDB=1ji1 \| SCENE= }}		{{STRUCTURE_1ji1\| PDB=1ji1 \| SCENE= }}

	===Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1===		===Crystal Structure Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase 1===
			{{ABSTRACT_PUBMED_12051850}}

	~~{{ABSTRACT_PUBMED_12051850}}~~		==Function==
			[[http://www.uniprot.org/uniprot/NEPU1_THEVU NEPU1_THEVU]] Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Also hydrolyzes cyclodextrins.

	==About this Structure==		==About this Structure==
	[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermoactinomyces_vulgaris Thermoactinomyces vulgaris~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA].		[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43649 Atcc 43649]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA].

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

	==Reference==		==Reference==
	<ref group="xtra">PMID:012051850</ref><references group="xtra"/>		<ref group="xtra">PMID:012051850</ref><references group="xtra"/><references/>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
	[[Category: ~~Thermoactinomyces vulgaris~~]]		[[Category: Atcc 43649]]
	[[Category: Abe, A.]]		[[Category: Abe, A.]]
	[[Category: Kaji, A.]]		[[Category: Kaji, A.]]

OCA at 08:29, 20 October 2012

2012-10-20T08:29:02Z

← Older revision		Revision as of 08:29, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[1ji1]] is a 2 chain structure ~~of [[Alpha-Amylase]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA].		[[1ji1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JI1 OCA].

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