6sav - Revision history

OCA at 12:38, 24 January 2024

2024-01-24T12:38:25Z

←Older revision		Revision as of 12:38, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6sav' size='340' side='right'caption='[[6sav]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='6sav' size='340' side='right'caption='[[6sav]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sav]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_46342 Atcc 46342~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6SAV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sav]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhizomucor_pusillus Rhizomucor pusillus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SAV 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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N~~-~~ACETYL-D-GLUCOSAMINE'>NAG</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.4Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~IAS~~:~~BETA-L-ASPARTIC~~+~~ACID~~'>~~IAS~~</scene><~~/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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IAS:BETA-L-ASPARTIC+ACID'>IAS</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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'>[https://proteopedia.org/fgij/fg.htm?mol=6sav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sav OCA], [https://pdbe.org/6sav PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6sav RCSB], [https://www.ebi.ac.uk/pdbsum/6sav PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6sav ProSAT]</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=6sav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sav OCA], [~~http~~://pdbe.org/6sav PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6sav RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6sav PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6sav ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/M9TI89_RHIPU M9TI89_RHIPU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6sav" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6sav" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Amylase 3D structures\|Amylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Alpha-amylase]]
-	[[Category: Atcc 46342]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Andersen, C]]	+	[[Category: Rhizomucor pusillus]]
-	[[Category: Ariza, A]]	+	[[Category: Andersen C]]
-	[[Category: Blagova, E]]	+	[[Category: Ariza A]]
-	[[Category: Davies~~, G J~~]]	+	[[Category: Blagova E]]
-	[[Category: Ming, L]]	+	[[Category: Davies GJ]]
-	[[Category: Moroz~~, O V~~]]	+	[[Category: Ming L]]
-	[[Category: Roth, C]]	+	[[Category: Moroz OV]]
-	[[Category: Tianqi, S]]	+	[[Category: Roth C]]
-	[[Category: Turkenburg~~, J P~~]]	+	[[Category: Tianqi S]]
-	[[Category: Waterman, J]]	+	[[Category: Turkenburg JP]]
-	[[Category: Wilson~~, K S]]~~	+	[[Category: Waterman J]]
-	~~[[Category: Biotechnology]]~~	+	[[Category: Wilson KS]]
-	~~[[Category: Fungal amylase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 09:43, 30 October 2019

2019-10-30T09:43:38Z

←Older revision		Revision as of 09:43, 30 October 2019
Line 3:		Line 3:
	<StructureSection load='6sav' size='340' side='right'caption='[[6sav]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='6sav' size='340' side='right'caption='[[6sav]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sav]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SAV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sav]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_46342 Atcc 46342]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SAV 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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=IAS:BETA-L-ASPARTIC+ACID'>IAS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=IAS:BETA-L-ASPARTIC+ACID'>IAS</scene></td></tr>
Line 9:		Line 9:
	<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=6sav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sav OCA], [http://pdbe.org/6sav PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sav RCSB], [http://www.ebi.ac.uk/pdbsum/6sav PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sav ProSAT]</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=6sav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sav OCA], [http://pdbe.org/6sav PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sav RCSB], [http://www.ebi.ac.uk/pdbsum/6sav PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sav ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Amylases are probably the best studied glycoside hydrolases and have a huge biotechnological value for industrial processes on starch. Multiple amylases from fungi and microbes are currently in use. Whereas bacterial amylases are well suited for many industrial processes due to their high stability, fungal amylases are recognized as safe and are preferred in the food industry, although they lack the pH tolerance and stability of their bacterial counterparts. Here, we describe three amylases, two of which have a broad pH spectrum extending to pH 8 and higher stability well suited for a broad set of industrial applications. These enzymes have the characteristic GH13 alpha-amylase fold with a central (beta/alpha)8-domain, an insertion domain with the canonical calcium binding site and a C-terminal beta-sandwich domain. The active site was identified based on the binding of the inhibitor acarbose in form of a transglycosylation product, in the amylases from Thamnidium elegans and Cordyceps farinosa. The three amylases have shortened loops flanking the nonreducing end of the substrate binding cleft, creating a more open crevice. Moreover, a potential novel binding site in the C-terminal domain of the Cordyceps enzyme was identified, which might be part of a starch interaction site. In addition, Cordyceps farinosa amylase presented a successful example of using the microseed matrix screening technique to significantly speed-up crystallization.
		+
		+	Structural and Functional Characterization of Three Novel Fungal Amylases with Enhanced Stability and pH Tolerance.,Roth C, Moroz OV, Turkenburg JP, Blagova E, Waterman J, Ariza A, Ming L, Tianqi S, Andersen C, Davies GJ, Wilson KS Int J Mol Sci. 2019 Oct 3;20(19). pii: ijms20194902. doi: 10.3390/ijms20194902. PMID:31623309<ref>PMID:31623309</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6sav" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
		+	[[Category: Atcc 46342]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Andersen, C]]		[[Category: Andersen, C]]

OCA at 07:03, 23 October 2019

2019-10-23T07:03:26Z

←Older revision		Revision as of 07:03, 23 October 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6sav is ~~ON HOLD until Paper Publication~~	+	==Structural and functional characterisation of three novel fungal amylases with enhanced stability and pH tolerance==
-		+	<StructureSection load='6sav' size='340' side='right'caption='[[6sav]], [[Resolution\|resolution]] 1.40Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6sav]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SAV FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=IAS:BETA-L-ASPARTIC+ACID'>IAS</scene></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=6sav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sav OCA], [http://pdbe.org/6sav PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sav RCSB], [http://www.ebi.ac.uk/pdbsum/6sav PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sav ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Alpha-amylase]]
		+	[[Category: Large Structures]]
		+	[[Category: Andersen, C]]
		+	[[Category: Ariza, A]]
		+	[[Category: Blagova, E]]
		+	[[Category: Davies, G J]]
		+	[[Category: Ming, L]]
		+	[[Category: Moroz, O V]]
		+	[[Category: Roth, C]]
		+	[[Category: Tianqi, S]]
		+	[[Category: Turkenburg, J P]]
		+	[[Category: Waterman, J]]
		+	[[Category: Wilson, K S]]
		+	[[Category: Biotechnology]]
		+	[[Category: Fungal amylase]]
		+	[[Category: Hydrolase]]

OCA at 04:54, 31 July 2019

2019-07-31T04:54:04Z

←Older revision		Revision as of 04:54, 31 July 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6sav is ON HOLD until ~~sometime in the future~~	+	The entry 6sav is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6sav" [edit=sysop:move=sysop]

2019-07-24T04:45:36Z

Protected "6sav" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:45, 24 July 2019

OCA: New page: '''Unreleased structure''' The entry 6sav is ON HOLD until sometime in the future Authors: Description: Category: Unreleased Structures

2019-07-24T04:45:35Z

New page: '''Unreleased structure''' The entry 6sav is ON HOLD until sometime in the future Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6sav is ON HOLD until sometime in the future

Authors:

Description:
[[Category: Unreleased Structures]]