6zjx - Revision history

OCA at 11:53, 1 February 2024

OCA — Thu, 01 Feb 2024 11:53:42 GMT

←Older revision		Revision as of 11:53, 1 February 2024
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	<StructureSection load='6zjx' size='340' side='right'caption='[[6zjx]], [[Resolution\|resolution]] 2.21Å' scene=''>		<StructureSection load='6zjx' size='340' side='right'caption='[[6zjx]], [[Resolution\|resolution]] 2.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6zjx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arthrobacter_sp.~~_32cb~~ Arthrobacter sp. ~~32cb~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZJX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6ZJX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zjx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arthrobacter_sp._32cB Arthrobacter sp. 32cB]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZJX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ZJX FirstGlance]. <br>
-	</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=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=~~FRU~~:~~FRUCTOSE~~'>~~FRU~~</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]] 2.206Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6etz\|6etz]], [[6h1p\|6h1p]], [[6se8\|6se8]], [[6se9\|6se9]], [[6sea\|6sea]], [[6seb\|6seb]], [[6sec\|6sec]], [[6sed\|6sed]]</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=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=6zjx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zjx OCA], [https://pdbe.org/6zjx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zjx RCSB], [https://www.ebi.ac.uk/pdbsum/6zjx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zjx 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=6zjx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zjx OCA], [~~http~~://pdbe.org/6zjx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6zjx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6zjx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6zjx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A023UGN9_9MICC A0A023UGN9_9MICC]
	<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 6zjx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6zjx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Galactosidase 3D structures\|Galactosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Arthrobacter sp. ~~32cb]]~~	+	[[Category: Arthrobacter sp. 32cB]]
-	~~[[Category: Beta-galactosidase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bujacz, A]]	+	[[Category: Bujacz A]]
-	[[Category: Bujacz, G]]	+	[[Category: Bujacz G]]
-	[[Category: Rutkiewicz, M]]	+	[[Category: Rutkiewicz M]]
-	~~[[Category: Cold-adapted]]~~	+
-	~~[[Category: Dimeric]]~~	+
-	~~[[Category: Galactosidase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Loss of function]]~~	+
-	~~[[Category: Mutant]]~~	+
-	~~[[Category: Psychrophilic]]~~	+
-	~~[[Category: Saccharose~~]]	+

OCA at 10:10, 12 August 2020

OCA — Wed, 12 Aug 2020 10:10:33 GMT

←Older revision		Revision as of 10:10, 12 August 2020
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	==Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D207A in complex with saccharose==		==Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D207A in complex with saccharose==
-	<StructureSection load='6zjx' size='340' side='right'caption='[[6zjx]]' scene=''>	+	<StructureSection load='6zjx' size='340' side='right'caption='[[6zjx]], [[Resolution\|resolution]] 2.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZJX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZJX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zjx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arthrobacter_sp._32cb Arthrobacter sp. 32cb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZJX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZJX FirstGlance]. <br>
-	</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=6zjx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zjx OCA], [http://pdbe.org/6zjx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zjx RCSB], [http://www.ebi.ac.uk/pdbsum/6zjx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zjx ProSAT]</span></td></tr>	+	</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=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6etz\|6etz]], [[6h1p\|6h1p]], [[6se8\|6se8]], [[6se9\|6se9]], [[6sea\|6sea]], [[6seb\|6seb]], [[6sec\|6sec]], [[6sed\|6sed]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=6zjx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zjx OCA], [http://pdbe.org/6zjx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zjx RCSB], [http://www.ebi.ac.uk/pdbsum/6zjx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zjx ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	beta-Galactosidase from Arthrobacter sp. 32cB (ArthbetaDG) is a cold-adapted enzyme able to catalyze hydrolysis of beta-d-galactosides and transglycosylation reaction, where galactosyl moiety is being transferred onto an acceptor larger than a water molecule. Mutants of ArthbetaDG: D207A and E517Q were designed to determine the significance of specific residues and to enable formation of complexes with lactulose and sucrose and to shed light onto the structural basis of the transglycosylation reaction. The catalytic assays proved loss of function mutation E517 into glutamine and a significant drop of activity for mutation of D207 into alanine. Solving crystal structures of two new mutants, and new complex structures of previously presented mutant E441Q enables description of introduced changes within active site of enzyme and determining the importance of mutated residues for active site size and character. Furthermore, usage of mutants with diminished and abolished enzymatic activity enabled solving six complex structures with galactose, lactulose or sucrose bounds. As a result, not only the galactose binding sites were mapped on the enzyme's surface but also the mode of lactulose, product of transglycosylation reaction, and binding within the enzyme's active site were determined and the glucopyranose binding site in the distal of active site was discovered. The latter two especially show structural details of transglycosylation, providing valuable information that may be used for engineering of ArthbetaDG or other analogous galactosidases belonging to GH2 family.
		+
		+	Mapping the Transglycosylation Relevant Sites of Cold-Adapted beta-d-Galactosidase from Arthrobacter sp. 32cB.,Rutkiewicz M, Wanarska M, Bujacz A Int J Mol Sci. 2020 Jul 28;21(15). pii: ijms21155354. doi: 10.3390/ijms21155354. PMID:32731412<ref>PMID:32731412</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6zjx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arthrobacter sp. 32cb]]
		+	[[Category: Beta-galactosidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bujacz A]]	+	[[Category: Bujacz, A]]
-	[[Category: Bujacz G]]	+	[[Category: Bujacz, G]]
-	[[Category: Rutkiewicz M]]	+	[[Category: Rutkiewicz, M]]
		+	[[Category: Cold-adapted]]
		+	[[Category: Dimeric]]
		+	[[Category: Galactosidase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Loss of function]]
		+	[[Category: Mutant]]
		+	[[Category: Psychrophilic]]
		+	[[Category: Saccharose]]

OCA at 05:36, 5 August 2020

OCA — Wed, 05 Aug 2020 05:36:41 GMT

←Older revision		Revision as of 05:36, 5 August 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6zjx is ON HOLD until Paper Publication~~	+	==Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D207A in complex with saccharose==
-		+	<StructureSection load='6zjx' size='340' side='right'caption='[[6zjx]]' scene=''>
-	~~Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZJX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZJX FirstGlance]. <br>
-	~~Description:~~ Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D207A in complex with saccharose	+	</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=6zjx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zjx OCA], [http://pdbe.org/6zjx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zjx RCSB], [http://www.ebi.ac.uk/pdbsum/6zjx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zjx ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Rutkiewicz, M~~]]	+	__TOC__
-	[[Category: Bujacz, G]]	+	</StructureSection>
-	[[Category: ~~Bujacz, A~~]]	+	[[Category: Large Structures]]
		+	[[Category: Bujacz A]]
		+	[[Category: Bujacz G]]
		+	[[Category: Rutkiewicz M]]

OCA at 09:30, 29 July 2020

OCA — Wed, 29 Jul 2020 09:30:23 GMT

←Older revision		Revision as of 09:30, 29 July 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6zjx is ON HOLD	+	The entry 6zjx is ON HOLD until Paper Publication

	Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G.		Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G.

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

OCA — Wed, 08 Jul 2020 11:14:51 GMT

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

←Older revision

Revision as of 11:14, 8 July 2020

OCA: New page: '''Unreleased structure''' The entry 6zjx is ON HOLD Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G. Description: Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D2...

OCA — Wed, 08 Jul 2020 11:14:49 GMT

New page: '''Unreleased structure''' The entry 6zjx is ON HOLD Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G. Description: Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D2...

New page

'''Unreleased structure'''

The entry 6zjx is ON HOLD

Authors: Rutkiewicz, M., Bujacz, A., Bujacz, G.

Description: Cold-adapted beta-D-galactosidase from Arthrobacter sp. 32cB mutant D207A in complex with saccharose
[[Category: Unreleased Structures]]
[[Category: Rutkiewicz, M]]
[[Category: Bujacz, G]]
[[Category: Bujacz, A]]