5kjq - Revision history

OCA at 10:02, 27 September 2023

OCA — Wed, 27 Sep 2023 10:02:13 GMT

←Older revision		Revision as of 10:02, 27 September 2023
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	<StructureSection load='5kjq' size='340' side='right'caption='[[5kjq]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='5kjq' size='340' side='right'caption='[[5kjq]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kjq]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Chrysosporium_pruinosum_(gilman_&_abbott)_carmich. Chrysosporium pruinosum (gilman & abbott) carmich.~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KJQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kjq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Phanerodontia_chrysosporium Phanerodontia chrysosporium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KJQ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CBI:CELLOBIOSE'>CBI</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]] 1.704Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5kjo\|5kjo]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">egv ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5306 Chrysosporium pruinosum (Gilman & Abbott) Carmich.])~~</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=5kjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kjq OCA], [https://pdbe.org/5kjq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kjq RCSB], [https://www.ebi.ac.uk/pdbsum/5kjq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kjq 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=5kjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kjq OCA], [~~http~~://pdbe.org/5kjq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kjq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kjq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kjq ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B3Y002_PHACH B3Y002_PHACH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Camilo, C M~~]]	+	[[Category: Phanerodontia chrysosporium]]
-	[[Category: ~~Godoy, A S~~]]	+	[[Category: Camilo CM]]
-	[[Category: ~~Polikarpov, I~~]]	+	[[Category: Godoy AS]]
-	[[Category: ~~Ramia, M P~~]]	+	[[Category: Polikarpov I]]
-	[[Category: ~~Cellobiose]]~~	+	[[Category: Ramia MP]]
-	~~[[Category: Endoglucanase]]~~	+
-	~~[[Category: Expansin]]~~	+
-	~~[[Category: Gh45 family]]~~	+
-	~~[[Category: Pccel45a]]~~	+
-	~~[[Category: Phanerochaete chrysosporium]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 06:00, 12 June 2019

OCA — Wed, 12 Jun 2019 06:00:24 GMT

←Older revision		Revision as of 06:00, 12 June 2019
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	<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=5kjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kjq OCA], [http://pdbe.org/5kjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kjq RCSB], [http://www.ebi.ac.uk/pdbsum/5kjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kjq 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=5kjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kjq OCA], [http://pdbe.org/5kjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kjq RCSB], [http://www.ebi.ac.uk/pdbsum/5kjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kjq ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The glycoside hydrolase family 45 (GH45) of carbohydrate modifying enzymes is mostly comprised of beta-1,4-endoglucanases. Significant diversity between the GH45 members has prompted the division of this family into three subfamilies: A, B and C, which may differ in terms of the mechanism, general architecture, substrate binding and cleavage. Here, we use a combination of X-ray crystallography, bioinformatics, enzymatic assays, molecular dynamics simulations and site-directed mutagenesis experiments to characterize the structure, substrate binding and enzymatic specificity of the GH45 subfamily C endoglucanase from Phanerochaete chrysosporium (PcCel45A). We investigated the role played by different residues in the binding of the enzyme to cellulose oligomers of different lengths and examined the structural characteristics and dynamics of PcCel45A that make subfamily C so dissimilar to other members of the GH45 family. Due to the structural similarity shared between PcCel45A and domain I of expansins, comparative analysis of their substrate binding was also carried out. Our bioinformatics sequence analyses revealed that the hydrolysis mechanisms in GH45 subfamily C is not restricted to use of the imidic asparagine as a general base in the "Newton's cradle" catalytic mechanism recently proposed for this subfamily.
		+
		+	Structure, computational and biochemical analysis of PcCel45A endoglucanase from Phanerochaete chrysosporium and catalytic mechanisms of GH45 subfamily C members.,Godoy AS, Pereira CS, Ramia MP, Silveira RL, Camilo CM, Kadowaki MA, Lange L, Busk PK, Nascimento AS, Skaf MS, Polikarpov I Sci Rep. 2018 Feb 27;8(1):3678. doi: 10.1038/s41598-018-21798-9. PMID:29487297<ref>PMID:29487297</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5kjq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:24, 17 April 2019

OCA — Wed, 17 Apr 2019 06:24:11 GMT

←Older revision		Revision as of 06:24, 17 April 2019
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	==X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans==		==X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans==
-	<StructureSection load='5kjq' size='340' side='right' caption='[[5kjq]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='5kjq' size='340' side='right'caption='[[5kjq]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5kjq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrysosporium_pruinosum_(gilman_&_abbott)_carmich. Chrysosporium pruinosum (gilman & abbott) carmich.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KJQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5kjq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrysosporium_pruinosum_(gilman_&_abbott)_carmich. Chrysosporium pruinosum (gilman & abbott) carmich.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KJQ FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Camilo, C M]]		[[Category: Camilo, C M]]
	[[Category: Godoy, A S]]		[[Category: Godoy, A S]]

OCA at 08:37, 16 November 2017

OCA — Thu, 16 Nov 2017 08:37:45 GMT

←Older revision		Revision as of 08:37, 16 November 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5kjq is ~~ON HOLD until Jun 20 2018~~	+	==X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans==
-		+	<StructureSection load='5kjq' size='340' side='right' caption='[[5kjq]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors~~: ~~Godoy~~, A.S., ~~Ramia~~, M.P., ~~Camilo, C~~.M., ~~Polikarpov, I~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5kjq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Chrysosporium_pruinosum_(gilman_&_abbott)_carmich. Chrysosporium pruinosum (gilman & abbott) carmich.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KJQ FirstGlance]. <br>
-	~~Description: X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBI:CELLOBIOSE'>CBI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kjo\|5kjo]]</td></tr>
-	[[Category: Godoy, A.S]]	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">egv ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5306 Chrysosporium pruinosum (Gilman & Abbott) Carmich.])</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=5kjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kjq OCA], [http://pdbe.org/5kjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kjq RCSB], [http://www.ebi.ac.uk/pdbsum/5kjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kjq ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Camilo, C M]]
		+	[[Category: Godoy, A S]]
	[[Category: Polikarpov, I]]		[[Category: Polikarpov, I]]
-	[[Category: Ramia, M.P]]	+	[[Category: Ramia, M P]]
-	[[Category: ~~Camilo, C.M~~]]	+	[[Category: Cellobiose]]
		+	[[Category: Endoglucanase]]
		+	[[Category: Expansin]]
		+	[[Category: Gh45 family]]
		+	[[Category: Pccel45a]]
		+	[[Category: Phanerochaete chrysosporium]]
		+	[[Category: Sugar binding protein]]

OCA at 13:02, 27 July 2016

OCA — Wed, 27 Jul 2016 13:02:58 GMT

←Older revision		Revision as of 13:02, 27 July 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kjq is ON HOLD	+	The entry 5kjq is ON HOLD until Jun 20 2018

	Authors: Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I.		Authors: Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I.

OCA: Protected "5kjq" [edit=sysop:move=sysop]

OCA — Wed, 13 Jul 2016 00:26:13 GMT

Protected "5kjq" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:26, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kjq is ON HOLD Authors: Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I. Description: X-ray structure of PcCel45A in complex with cellobiose...

OCA — Wed, 13 Jul 2016 00:26:12 GMT

New page: '''Unreleased structure''' The entry 5kjq is ON HOLD Authors: Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I. Description: X-ray structure of PcCel45A in complex with cellobiose...

New page

'''Unreleased structure'''

The entry 5kjq is ON HOLD

Authors: Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I.

Description: X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans
[[Category: Unreleased Structures]]
[[Category: Godoy, A.S]]
[[Category: Polikarpov, I]]
[[Category: Ramia, M.P]]
[[Category: Camilo, C.M]]