1ji2 - Revision history

OCA at 13:24, 13 March 2024

2024-03-13T13:24:42Z

← Older revision		Revision as of 13:24, 13 March 2024
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	<StructureSection load='1ji2' size='340' side='right'caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ji2' size='340' side='right'caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI2 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]] 2.3Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1bvz\|1bvz]], [[1ji1\|1ji1]]</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/Neopullulanase Neopullulanase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135]~~ </~~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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [https://pdbe.org/1ji2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji2 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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [https://pdbe.org/1ji2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.		[https://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.
	== 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=1ji2 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=1ji2 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 1ji2" 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: Atcc 43649]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Neopullulanase~~]]		[[Category: Thermoactinomyces vulgaris]]
	[[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: Hydrolase~~]]

OCA at 07:19, 14 April 2021

2021-04-14T07:19:11Z

← Older revision		Revision as of 07:19, 14 April 2021
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	<StructureSection load='1ji2' size='340' side='right'caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ji2' size='340' side='right'caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1JI2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JI2 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">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1bvz\|1bvz]], [[1ji1\|1ji1]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [~~http~~://pdbe.org/1ji2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ji2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji2 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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [https://pdbe.org/1ji2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [https://www.ebi.ac.uk/pdbsum/1ji2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.		[[https://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:22, 10 July 2019

2019-07-10T07:22:18Z

← Older revision		Revision as of 07:22, 10 July 2019
Line 1:		Line 1:

	==Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2==		==Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2==
	<StructureSection load='1ji2' size='340' side='right' caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ji2' size='340' side='right'caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI2 FirstGlance]. <br>
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ji/1ji2_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ji/1ji2_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 32:		Line 32:

	==See Also==		==See Also==
	*[[Amylase\|Amylase]]		*[[Amylase 3D structures\|Amylase 3D structures]]
	*[[User:Gabriel Pons/Sandbox 2\|User:Gabriel Pons/Sandbox 2]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 43649]]		[[Category: Atcc 43649]]
			[[Category: Large Structures]]
	[[Category: Neopullulanase]]		[[Category: Neopullulanase]]
	[[Category: Abe, A]]		[[Category: Abe, A]]

OCA at 09:53, 4 October 2017

2017-10-04T09:53:01Z

← Older revision		Revision as of 09:53, 4 October 2017
Line 1:		Line 1:

	==Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2==		==Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2==
	<StructureSection load='1ji2' size='340' side='right' caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ji2' size='340' side='right' caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://pdbe.org/1ji2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://pdbe.org/1ji2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ji2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=1ji2 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:29, 11 September 2015

2015-09-11T12:29:30Z

← Older revision		Revision as of 12:29, 11 September 2015
Line 6:		Line 6:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://pdbe.org/1ji2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 1ji2" style="background-color:#fffaf0;"></div>

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

OCA at 16:27, 25 December 2014

2014-12-25T16:27:47Z

← Older revision		Revision as of 16:27, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI2 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">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.
	== 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: Atcc 43649]]		[[Category: Atcc 43649]]
	[[Category: Neopullulanase]]		[[Category: Neopullulanase]]
	[[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 09:34, 3 October 2014

2014-10-03T09:34:31Z

← Older revision		Revision as of 09:34, 3 October 2014
Line 1:		Line 1:
	~~{{STRUCTURE_1ji2~~\| ~~PDB~~=1ji2 \| ~~SCENE~~= }}		==Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2==
	===~~Improved~~ X-ray ~~Structure~~ of Thermoactinomyces vulgaris R-47 alpha-~~Amylase~~ 2===		<StructureSection load='1ji2' size='340' side='right' caption='[[1ji2]], [[Resolution\|resolution]] 2.30Å' scene=''>
	~~{{ABSTRACT_PUBMED_12051850}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[1ji2]] 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=1JI2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JI2 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">[[1bvz\|1bvz]], [[1ji1\|1ji1]]</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </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=1ji2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ji2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ji2 RCSB], [http://www.ebi.ac.uk/pdbsum/1ji2 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/1ji2_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/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis~~ of ~~1,4~~-alpha-~~glucosidic linkages in pullulan to form panose. Cleaves also~~ (1-6)-~~alpha-glucosidic linkages to form maltotriose~~.

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[1ji2]] 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=1JI2 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: Atcc 43649]]		[[Category: Atcc 43649]]
	[[Category: Neopullulanase]]		[[Category: Neopullulanase]]

OCA at 08:10, 16 April 2014

2014-04-16T08:10:27Z

← Older revision		Revision as of 08:10, 16 April 2014
Line 1:		Line 1:
	~~[[Image:1ji2.png\|left\|200px]]~~

	{{STRUCTURE_1ji2\| PDB=1ji2 \| SCENE= }}		{{STRUCTURE_1ji2\| PDB=1ji2 \| SCENE= }}

	===Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2===		===Improved X-ray Structure of Thermoactinomyces vulgaris R-47 alpha-Amylase 2===
			{{ABSTRACT_PUBMED_12051850}}

	~~{{ABSTRACT_PUBMED_12051850}}~~		==Function==
			[[http://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU]] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.

	==About this Structure==		==About this Structure==
	[[1ji2]] 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=1JI2 OCA].		[[1ji2]] 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=1JI2 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: Atcc 43649]]
	[[Category: Neopullulanase]]		[[Category: Neopullulanase]]
	~~[[Category: Thermoactinomyces vulgaris]]~~
	[[Category: Abe, A.]]		[[Category: Abe, A.]]
	[[Category: Kaji, A.]]		[[Category: Kaji, A.]]

OCA at 18:54, 20 October 2012

2012-10-20T18:54:10Z

← Older revision		Revision as of 18:54, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[1ji2]] 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=1JI2 OCA].		[[1ji2]] 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=1JI2 OCA].

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

OCA: Protected "1ji2" [edit=sysop:move=sysop]

2012-07-27T05:37:32Z

Protected "1ji2" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:37, 27 July 2012
(No difference)