6jr7 - Revision history

OCA at 10:18, 22 November 2023

OCA — Wed, 22 Nov 2023 10:18:41 GMT

←Older revision		Revision as of 10:18, 22 November 2023
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	<StructureSection load='6jr7' size='340' side='right'caption='[[6jr7]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='6jr7' size='340' side='right'caption='[[6jr7]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jr7]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cytophaga_johnsonae Cytophaga johnsonae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JR7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6JR7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jr7]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Flavobacterium_johnsoniae_UW101 Flavobacterium johnsoniae UW101]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JR7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JR7 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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]] 1.75Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6jr6\|6jr6]]~~, [[~~6jr8~~\|~~6jr8~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Fjoh_4430 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=376686 Cytophaga johnsonae])</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=6jr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jr7 OCA], [https://pdbe.org/6jr7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jr7 RCSB], [https://www.ebi.ac.uk/pdbsum/6jr7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jr7 ProSAT]</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~~-~~glucosidase Alpha~~-~~glucosidase]~~, ~~with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.2.1.20 3.2.1.20]~~ </~~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=6jr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jr7 OCA], [~~http~~://pdbe.org/6jr7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6jr7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6jr7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6jr7 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A5FBI1_FLAJ1 A5FBI1_FLAJ1]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6jr7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6jr7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Alpha-glucosidase 3D structures\|Alpha-glucosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alpha-glucosidase]]~~	+	[[Category: Flavobacterium johnsoniae UW101]]
-	~~[[Category: Cytophaga johnsonae~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Tonozuka, T]]	+	[[Category: Tonozuka T]]
-	~~[[Category: Dextran]]~~	+
-	~~[[Category: Dextranase]]~~	+
-	~~[[Category: Flavobacterium johnsoniae]]~~	+
-	~~[[Category: Gh31]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Isomaltose~~]]	+

OCA at 06:07, 10 October 2019

OCA — Thu, 10 Oct 2019 06:07:50 GMT

←Older revision		Revision as of 06:07, 10 October 2019
Line 3:		Line 3:
	<StructureSection load='6jr7' size='340' side='right'caption='[[6jr7]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='6jr7' size='340' side='right'caption='[[6jr7]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jr7]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JR7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JR7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jr7]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cytophaga_johnsonae Cytophaga johnsonae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JR7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JR7 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6jr6\|6jr6]], [[6jr8\|6jr8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6jr6\|6jr6]], [[6jr8\|6jr8]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Fjoh_4430 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=376686 Cytophaga johnsonae])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-glucosidase Alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.20 3.2.1.20] </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-glucosidase Alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.20 3.2.1.20] </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=6jr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jr7 OCA], [http://pdbe.org/6jr7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jr7 RCSB], [http://www.ebi.ac.uk/pdbsum/6jr7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jr7 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=6jr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jr7 OCA], [http://pdbe.org/6jr7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jr7 RCSB], [http://www.ebi.ac.uk/pdbsum/6jr7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jr7 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glycoside hydrolase family (GH) 31 contains a large variety of enzymes, but the major members are enzymes that act on relatively small oligosaccharides such as alpha-glucosidase. Here, we determined the crystal structure of FjDex31A, an enzyme from Flavobacterium johnsoniae that hydrolyzes a polysaccharide, dextran. FjDex31A is composed of four domains: an N-terminal domain, a catalytic domain, a proximal C-terminal domain, and a distal C-terminal domain, as observed in typical GH31 enzymes. However, the architecture of active site residues in FjDex31A, other than subsite -1, is markedly different from that of other GH31 enzymes. The FjDex31A structure in complex with isomaltotriose shows that Gly273 and Tyr524, both of which interact with an alpha-glucose residue at subsite -2, as well as Trp376 and Leu308-cisGln309, are especially unique to FjDex31A. Site-directed mutagenesis of Gly273 and Tyr524 resulted in a decrease in the hydrolysis of polysaccharides dextran and pullulan, as well as that of the disaccharide isomaltose. These results suggest that, regardless of the length of sugar chains of the substrates, binding of FjDex31A to the substrates at subsite -2 is likely to be important for its activity.
		+
		+	Structural insights into polysaccharide recognition by Flavobacterium johnsoniae dextranase, a member of glycoside hydrolase family 31.,Tsutsumi K, Gozu Y, Nishikawa A, Tonozuka T FEBS J. 2019 Sep 25. doi: 10.1111/febs.15074. PMID:31552702<ref>PMID:31552702</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6jr7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Alpha-glucosidase]]		[[Category: Alpha-glucosidase]]
		+	[[Category: Cytophaga johnsonae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Tonozuka, T]]		[[Category: Tonozuka, T]]

OCA at 06:56, 24 April 2019

OCA — Wed, 24 Apr 2019 06:56:15 GMT

←Older revision		Revision as of 06:56, 24 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6jr7 ~~is ON HOLD~~	+	==Flavobacterium johnsoniae GH31 dextranase, FjDex31A, complexed with glucose==
-		+	<StructureSection load='6jr7' size='340' side='right'caption='[[6jr7]], [[Resolution\|resolution]] 1.75Å' scene=''>
-	~~Authors~~: ~~Tonozuka, T~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6jr7]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JR7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JR7 FirstGlance]. <br>
-	~~Description~~: ~~Flavobacterium johnsoniae GH31 dextranase~~, ~~FjDex31A~~, ~~complexed~~ with ~~glucose~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6jr6\|6jr6]], [[6jr8\|6jr8]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-glucosidase Alpha-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.20 3.2.1.20] </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=6jr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jr7 OCA], [http://pdbe.org/6jr7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jr7 RCSB], [http://www.ebi.ac.uk/pdbsum/6jr7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jr7 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Alpha-glucosidase]]
		+	[[Category: Large Structures]]
	[[Category: Tonozuka, T]]		[[Category: Tonozuka, T]]
		+	[[Category: Dextran]]
		+	[[Category: Dextranase]]
		+	[[Category: Flavobacterium johnsoniae]]
		+	[[Category: Gh31]]
		+	[[Category: Hydrolase]]
		+	[[Category: Isomaltose]]

OCA: Protected "6jr7" [edit=sysop:move=sysop]

OCA — Wed, 10 Apr 2019 05:24:39 GMT

Protected "6jr7" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:24, 10 April 2019

OCA: New page: '''Unreleased structure''' The entry 6jr7 is ON HOLD Authors: Tonozuka, T. Description: Flavobacterium johnsoniae GH31 dextranase, FjDex31A, complexed with glucose [[Category: Unreleas...

OCA — Wed, 10 Apr 2019 05:24:37 GMT

New page: '''Unreleased structure''' The entry 6jr7 is ON HOLD Authors: Tonozuka, T. Description: Flavobacterium johnsoniae GH31 dextranase, FjDex31A, complexed with glucose [[Category: Unreleas...

New page

'''Unreleased structure'''

The entry 6jr7 is ON HOLD

Authors: Tonozuka, T.

Description: Flavobacterium johnsoniae GH31 dextranase, FjDex31A, complexed with glucose
[[Category: Unreleased Structures]]
[[Category: Tonozuka, T]]