6ag0 - Revision history

OCA at 09:30, 22 November 2023

OCA — Wed, 22 Nov 2023 09:30:01 GMT

←Older revision		Revision as of 09:30, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6ag0' size='340' side='right'caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6ag0' size='340' side='right'caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_12980 Atcc 12980~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACR:ALPHA~~-~~ACARBOSE'>ACR</scene>~~, ~~<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]] 2.2Å</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AC1:6-METHYL-5-(4,5,6-TRIHYDROXY-3-HYDROXYMETHYL-CYCLOHEX-2-ENYLAMINO)-TETRAHYDRO-PYRAN-2,3,4-TRIOL'>AC1</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900007:alpha-acarbose'>PRD_900007</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [~~http~~://pdbe.org/6ag0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 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=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [https://pdbe.org/6ag0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [https://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9KWY6_GEOSE Q9KWY6_GEOSE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alpha-amylase]]~~	+	[[Category: Geobacillus stearothermophilus]]
-	~~[[Category: Atcc 12980~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ban~~, X F~~]]	+	[[Category: Ban XF]]
-	[[Category: Gu~~, Z B~~]]	+	[[Category: Gu ZB]]
-	[[Category: Jin~~, T C~~]]	+	[[Category: Jin TC]]
-	[[Category: Li~~, C M~~]]	+	[[Category: Li CM]]
-	[[Category: Li~~, Y L~~]]	+	[[Category: Li YL]]
-	[[Category: Li~~, Z F~~]]	+	[[Category: Li ZF]]
-	[[Category: Xie~~, X F~~]]	+	[[Category: Xie XF]]
-	[[Category: Zhang~~, C Y]]~~	+	[[Category: Zhang CY]]
-	~~[[Category: Bacillus stearothermophilus stb04]]~~	+
-	~~[[Category: Maltotetraose-forming amylase]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 07:08, 15 April 2020

OCA — Wed, 15 Apr 2020 07:08:39 GMT

←Older revision		Revision as of 07:08, 15 April 2020
Line 3:		Line 3:
	<StructureSection load='6ag0' size='340' side='right'caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6ag0' size='340' side='right'caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACR:ALPHA-ACARBOSE'>ACR</scene>, <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=ACR:ALPHA-ACARBOSE'>ACR</scene>, <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'>[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=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [http://pdbe.org/6ag0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [http://pdbe.org/6ag0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	To better understand structure-function relationships, an X-ray crystal structure of the maltooligosaccharide-forming amylase from Bacillus stearothermophilus STB04 (Bst-MFA) with bound acarbose has been determined at 2.2A. The structure revealed a classical three-domain fold stabilized by four calcium ions, in which CaI-CaIII form an unprecedented linear metal triad in the interior of domain B. Catalytic residues are deduced to be two aspartic acids and one glutamic acid (Asp234, Glu264, Asp331), and the acarbose is bound to surrounding amino acid residues, mainly through extensive hydrogen bonds. Furthermore, analysis of the structure indicates the existence of at least 8 subsites in Bst-MFA, six glycone sites (-6, -5, -4, -3, -2, -1) and two aglycone sites (+1, +2). Subsite +3 remains to be further explored. Sugar-binding subsites contribute to further presentation of the oligosaccharide-binding mode, which explains the product specificity of Bst-MFA to some extent. In addition, we propose a mechanism by which maltooligosaccharide-forming amylases produce particular maltooligosaccharide products, a result different from that seen with typical alpha-amylases. Finally, the three-dimensional structure of Bst-MFA complexed with acarbose provides the basis for further studies, designed to increase product specificity.
		+
		+	Crystal structure of a maltooligosaccharide-forming amylase from Bacillus stearothermophilus STB04.,Xie X, Li Y, Ban X, Zhang Z, Gu Z, Li C, Hong Y, Cheng L, Jin T, Li Z Int J Biol Macromol. 2019 Oct 1;138:394-402. doi: 10.1016/j.ijbiomac.2019.07.104., Epub 2019 Jul 17. PMID:31325505<ref>PMID:31325505</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ag0" 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>

OCA at 06:31, 29 May 2019

OCA — Wed, 29 May 2019 06:31:13 GMT

←Older revision		Revision as of 06:31, 29 May 2019
Line 1:		Line 1:

-	==The X-ray Crystallographic Structure of ~~Maltotetraose~~-forming Amylase from Bacillus ~~Stearothermophilus~~ STB04==	+	==The X-ray Crystallographic Structure of Maltooligosaccharide-forming Amylase from Bacillus stearothermophilus STB04==
-	<StructureSection load='6ag0' size='340' side='right' caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='6ag0' size='340' side='right'caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACR:ALPHA-ACARBOSE'>ACR</scene>, <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"><scene name='pdbligand=ACR:ALPHA-ACARBOSE'>ACR</scene>, <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'>[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=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [http://pdbe.org/6ag0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 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=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [http://pdbe.org/6ag0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 ProSAT]</span></td></tr>
	</table>		</table>
		+
		+	==See Also==
		+	*[[Amylase 3D structures\|Amylase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Alpha-amylase]]		[[Category: Alpha-amylase]]
		+	[[Category: Atcc 12980]]
		+	[[Category: Large Structures]]
	[[Category: Ban, X F]]		[[Category: Ban, X F]]
	[[Category: Gu, Z B]]		[[Category: Gu, Z B]]

OCA at 08:02, 10 October 2018

OCA — Wed, 10 Oct 2018 08:02:49 GMT

←Older revision		Revision as of 08:02, 10 October 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 6ag0 ~~is ON HOLD~~	+	==The X-ray Crystallographic Structure of Maltotetraose-forming Amylase from Bacillus Stearothermophilus STB04==
-		+	<StructureSection load='6ag0' size='340' side='right' caption='[[6ag0]], [[Resolution\|resolution]] 2.20Å' scene=''>
-	~~Authors~~: ~~Li, Z~~.F.~~, Li, Y~~.L., ~~Ban, X~~.F., ~~Zhang, C~~.Y., ~~Jin, T~~.C., ~~Xie~~, X.F., ~~Gu, Z~~.B., ~~Li, C~~.M.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ag0]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AG0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AG0 FirstGlance]. <br>
-	~~Description: The X-ray Crystallographic Structure of Maltotetraose-forming amylase from Bacillus stearothermophilus STB04~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACR:ALPHA-ACARBOSE'>ACR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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>
-	[[Category: ~~Xie~~, X.F]]	+	<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=6ag0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ag0 OCA], [http://pdbe.org/6ag0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ag0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ag0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ag0 ProSAT]</span></td></tr>
-	[[Category: Gu, Z.B]]	+	</table>
-	[[Category: ~~Ban~~, ~~X.F~~]]	+	__TOC__
-	[[Category: Li, C.M]]	+	</StructureSection>
-	[[Category: ~~Zhang~~, C.Y]]	+	[[Category: Alpha-amylase]]
-	[[Category: Li, Z.F]]	+	[[Category: Ban, X F]]
-	[[Category: ~~Jin~~, ~~T.C~~]]	+	[[Category: Gu, Z B]]
-	[[Category: Li, Y.L]]	+	[[Category: Jin, T C]]
		+	[[Category: Li, C M]]
		+	[[Category: Li, Y L]]
		+	[[Category: Li, Z F]]
		+	[[Category: Xie, X F]]
		+	[[Category: Zhang, C Y]]
		+	[[Category: Bacillus stearothermophilus stb04]]
		+	[[Category: Maltotetraose-forming amylase]]
		+	[[Category: Sugar binding protein]]

OCA: Protected "6ag0" [edit=sysop:move=sysop]

OCA — Wed, 15 Aug 2018 14:42:11 GMT

Protected "6ag0" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:42, 15 August 2018

OCA: New page: '''Unreleased structure''' The entry 6ag0 is ON HOLD Authors: Li, Z.F., Li, Y.L., Ban, X.F., Zhang, C.Y., Jin, T.C., Xie, X.F., Gu, Z.B., Li, C.M. Description: The X-ray Crystallograph...

OCA — Wed, 15 Aug 2018 14:42:09 GMT

New page: '''Unreleased structure''' The entry 6ag0 is ON HOLD Authors: Li, Z.F., Li, Y.L., Ban, X.F., Zhang, C.Y., Jin, T.C., Xie, X.F., Gu, Z.B., Li, C.M. Description: The X-ray Crystallograph...

New page

'''Unreleased structure'''

The entry 6ag0 is ON HOLD

Authors: Li, Z.F., Li, Y.L., Ban, X.F., Zhang, C.Y., Jin, T.C., Xie, X.F., Gu, Z.B., Li, C.M.

Description: The X-ray Crystallographic Structure of Maltotetraose-forming amylase from Bacillus stearothermophilus STB04
[[Category: Unreleased Structures]]
[[Category: Xie, X.F]]
[[Category: Gu, Z.B]]
[[Category: Ban, X.F]]
[[Category: Li, C.M]]
[[Category: Zhang, C.Y]]
[[Category: Li, Z.F]]
[[Category: Jin, T.C]]
[[Category: Li, Y.L]]