3x2o - Revision history

OCA at 05:39, 10 August 2022

OCA — Wed, 10 Aug 2022 05:39:29 GMT

←Older revision		Revision as of 05:39, 10 August 2022
Line 3:		Line 3:
	<StructureSection load='3x2o' size='340' side='right'caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3x2o' size='340' side='right'caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3x2o]] 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=3X2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3X2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3x2o]] is a 1 chain structure with sequence from [https://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=3X2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3X2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=41Q:4-IMINO-L-HOMOSERINE'>41Q</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=41Q:4-IMINO-L-HOMOSERINE'>41Q</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3x2g\|3x2g]], [[3x2h\|3x2h]], [[3x2i\|3x2i]], [[3x2j\|3x2j]], [[3x2k\|3x2k]], [[3x2l\|3x2l]], [[3x2m\|3x2m]], [[3x2n\|3x2n]], [[3x2p\|3x2p]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3x2g\|3x2g]], [[3x2h\|3x2h]], [[3x2i\|3x2i]], [[3x2j\|3x2j]], [[3x2k\|3x2k]], [[3x2l\|3x2l]], [[3x2m\|3x2m]], [[3x2n\|3x2n]], [[3x2p\|3x2p]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">egv, PcCel45A ([~~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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">egv, PcCel45A ([https://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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [~~http~~://pdbe.org/3x2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3x2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3x2o 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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [https://pdbe.org/3x2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [https://www.ebi.ac.uk/pdbsum/3x2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3x2o ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:17, 18 December 2019

OCA — Wed, 18 Dec 2019 08:17:57 GMT

←Older revision		Revision as of 08:17, 18 December 2019
Line 1:		Line 1:

	==Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.==		==Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.==
-	<StructureSection load='3x2o' size='340' side='right' caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3x2o' size='340' side='right'caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3x2o]] 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=3X2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[3x2o]] 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=3X2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X2O FirstGlance]. <br>
Line 10:		Line 10:
	<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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [http://pdbe.org/3x2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [http://www.ebi.ac.uk/pdbsum/3x2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3x2o 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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [http://pdbe.org/3x2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [http://www.ebi.ac.uk/pdbsum/3x2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3x2o ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Hydrolysis of carbohydrates is a major bioreaction in nature, catalyzed by glycoside hydrolases (GHs). We used neutron diffraction and high-resolution x-ray diffraction analyses to investigate the hydrogen bond network in inverting cellulase PcCel45A, which is an endoglucanase belonging to subfamily C of GH family 45, isolated from the basidiomycete Phanerochaete chrysosporium. Examination of the enzyme and enzyme-ligand structures indicates a key role of multiple tautomerizations of asparagine residues and peptide bonds, which are finally connected to the other catalytic residue via typical side-chain hydrogen bonds, in forming the "Newton's cradle"-like proton relay pathway of the catalytic cycle. Amide-imidic acid tautomerization of asparagine has not been taken into account in recent molecular dynamics simulations of not only cellulases but also general enzyme catalysis, and it may be necessary to reconsider our interpretation of many enzymatic reactions.
		+
		+	"Newton's cradle" proton relay with amide-imidic acid tautomerization in inverting cellulase visualized by neutron crystallography.,Nakamura A, Ishida T, Kusaka K, Yamada T, Fushinobu S, Tanaka I, Kaneko S, Ohta K, Tanaka H, Inaka K, Higuchi Y, Niimura N, Samejima M, Igarashi K Sci Adv. 2015 Aug 21;1(7):e1500263. doi: 10.1126/sciadv.1500263. eCollection 2015, Aug. PMID:26601228<ref>PMID:26601228</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3x2o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Igarashi, K]]		[[Category: Igarashi, K]]
	[[Category: Ishida, T]]		[[Category: Ishida, T]]

OCA at 05:45, 8 March 2018

OCA — Thu, 08 Mar 2018 05:45:54 GMT

←Older revision		Revision as of 05:45, 8 March 2018
Line 1:		Line 1:
		+
	==Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.==		==Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.==
	<StructureSection load='3x2o' size='340' side='right' caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3x2o' size='340' side='right' caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3x2o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3X2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3x2o]] 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=3X2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X2O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=41Q:4-IMINO-L-HOMOSERINE'>41Q</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=41Q:4-IMINO-L-HOMOSERINE'>41Q</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3x2g\|3x2g]], [[3x2h\|3x2h]], [[3x2i\|3x2i]], [[3x2j\|3x2j]], [[3x2k\|3x2k]], [[3x2l\|3x2l]], [[3x2m\|3x2m]], [[3x2n\|3x2n]], [[3x2p\|3x2p]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3x2g\|3x2g]], [[3x2h\|3x2h]], [[3x2i\|3x2i]], [[3x2j\|3x2j]], [[3x2k\|3x2k]], [[3x2l\|3x2l]], [[3x2m\|3x2m]], [[3x2n\|3x2n]], [[3x2p\|3x2p]]</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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [http://pdbe.org/3x2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [http://www.ebi.ac.uk/pdbsum/3x2o PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">egv, PcCel45A ([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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [http://pdbe.org/3x2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [http://www.ebi.ac.uk/pdbsum/3x2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3x2o ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 13:48, 7 October 2015

OCA — Wed, 07 Oct 2015 13:48:00 GMT

←Older revision		Revision as of 13:48, 7 October 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.==
-		+	<StructureSection load='3x2o' size='340' side='right' caption='[[3x2o]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~The entry~~ 3x2o is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3x2o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3X2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3X2O FirstGlance]. <br>
-	~~Authors~~: ~~Nakamura, A~~.~~, Ishida, T~~.~~, Kusaka, K~~.~~, Yamada, T~~., ~~Tanaka~~, I., ~~Niimura~~, N., ~~Samejima~~, M., ~~Igarashi~~, K.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>
-		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=41Q:4-IMINO-L-HOMOSERINE'>41Q</scene></td></tr>
-	~~Description~~: ~~Neutron and X~~-~~ray joint refined structure of PcCel45A apo form at 298K~~.	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3x2g\|3x2g]], [[3x2h\|3x2h]], [[3x2i\|3x2i]], [[3x2j\|3x2j]], [[3x2k\|3x2k]], [[3x2l\|3x2l]], [[3x2m\|3x2m]], [[3x2n\|3x2n]], [[3x2p\|3x2p]]</td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=3x2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3x2o OCA], [http://pdbe.org/3x2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3x2o RCSB], [http://www.ebi.ac.uk/pdbsum/3x2o PDBsum]</span></td></tr>
-	[[Category: ~~Samejima~~, M]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Igarashi, K]]
	[[Category: Ishida, T]]		[[Category: Ishida, T]]
	[[Category: Kusaka, K]]		[[Category: Kusaka, K]]
-	[[Category: ~~Igarashi~~, K]]	+	[[Category: Nakamura, A]]
		+	[[Category: Niimura, N]]
		+	[[Category: Samejima, M]]
	[[Category: Tanaka, I]]		[[Category: Tanaka, I]]
	[[Category: Yamada, T]]		[[Category: Yamada, T]]
-	[[Category: ~~Niimura, N]]~~	+	[[Category: Hydrolase]]
-	~~[[Category: Nakamura, A~~]]	+

OCA at 09:18, 12 August 2015

OCA — Wed, 12 Aug 2015 09:18:19 GMT

←Older revision		Revision as of 09:18, 12 August 2015
Line 3:		Line 3:
	The entry 3x2o is ON HOLD		The entry 3x2o is ON HOLD

-	Authors: Nakamura, A., Ishida, T., Kusaka, K., Yamada, T~~., Fushinobu, S~~., Tanaka, I~~., Kanako, S., Ohta, K., Tanaka, H., Inaka, K., Nakagawa, A., Higichi, Y~~., Niimura, N., Samejima, M., Igarashi, K.	+	Authors: Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Tanaka, I., Niimura, N., Samejima, M., Igarashi, K.

	Description: Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.		Description: Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Tanaka, H]]
-	[[Category: Kanako, S]]
-	[[Category: Fushinobu, S]]
	[[Category: Samejima, M]]		[[Category: Samejima, M]]
	[[Category: Ishida, T]]		[[Category: Ishida, T]]
-	[[Category: Ohta, K]]
	[[Category: Kusaka, K]]		[[Category: Kusaka, K]]
-	[[Category: Higichi, Y]]
	[[Category: Igarashi, K]]		[[Category: Igarashi, K]]
	[[Category: Tanaka, I]]		[[Category: Tanaka, I]]
-	[[Category: Nakagawa, A]]
	[[Category: Yamada, T]]		[[Category: Yamada, T]]
	[[Category: Niimura, N]]		[[Category: Niimura, N]]
-	[[Category: Inaka, K]]
	[[Category: Nakamura, A]]		[[Category: Nakamura, A]]

OCA: Protected "3x2o" [edit=sysop:move=sysop]

OCA — Wed, 31 Dec 2014 10:14:45 GMT

Protected "3x2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:14, 31 December 2014

OCA: New page: '''Unreleased structure''' The entry 3x2o is ON HOLD Authors: Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Fushinobu, S., Tanaka, I., Kanako, S., Ohta, K., Tanaka, H., Inaka, K., N...

OCA — Wed, 31 Dec 2014 10:14:43 GMT

New page: '''Unreleased structure''' The entry 3x2o is ON HOLD Authors: Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Fushinobu, S., Tanaka, I., Kanako, S., Ohta, K., Tanaka, H., Inaka, K., N...

New page

'''Unreleased structure'''

The entry 3x2o is ON HOLD

Authors: Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Fushinobu, S., Tanaka, I., Kanako, S., Ohta, K., Tanaka, H., Inaka, K., Nakagawa, A., Higichi, Y., Niimura, N., Samejima, M., Igarashi, K.

Description: Neutron and X-ray joint refined structure of PcCel45A apo form at 298K.
[[Category: Unreleased Structures]]
[[Category: Tanaka, H]]
[[Category: Kanako, S]]
[[Category: Fushinobu, S]]
[[Category: Samejima, M]]
[[Category: Ishida, T]]
[[Category: Ohta, K]]
[[Category: Kusaka, K]]
[[Category: Higichi, Y]]
[[Category: Igarashi, K]]
[[Category: Tanaka, I]]
[[Category: Nakagawa, A]]
[[Category: Yamada, T]]
[[Category: Niimura, N]]
[[Category: Inaka, K]]
[[Category: Nakamura, A]]