5nz8 - Revision history

OCA at 12:16, 22 November 2023

OCA — Wed, 22 Nov 2023 12:16:40 GMT

←Older revision		Revision as of 12:16, 22 November 2023
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	<StructureSection load='5nz8' size='340' side='right'caption='[[5nz8]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='5nz8' size='340' side='right'caption='[[5nz8]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nz8]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"ruminiclostridium_thermocellum"_(viljoen_et_al._1926)_yutin_and_galperin_2013 "ruminiclostridium thermocellum" (viljoen et al. 1926) yutin and galperin 2013~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NZ8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5NZ8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nz8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus Acetivibrio thermocellus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NZ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NZ8 FirstGlance]. <br>
-	</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=PO4:PHOSPHATE+ION'>PO4</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]] 3Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~cdp-ym4 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id~~=~~1515 "Ruminiclostridium thermocellum" (Viljoen et al. 1926) Yutin and Galperin 2013])~~</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=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=PRD_900011:beta-cellotetraose'>PRD_900011</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=5nz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nz8 OCA], [~~http~~://pdbe.org/5nz8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5nz8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5nz8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5nz8 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=5nz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nz8 OCA], [https://pdbe.org/5nz8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nz8 RCSB], [https://www.ebi.ac.uk/pdbsum/5nz8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nz8 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q93HT8_ACETH Q93HT8_ACETH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Acetivibrio thermocellus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Field~~, R A~~]]	+	[[Category: Field RA]]
-	[[Category: Lawson~~, D M~~]]	+	[[Category: Lawson DM]]
-	[[Category: ~~Neill, E C.O~~]]	+	[[Category: Nepogodiev SA]]
-	[[Category: ~~Nepogodiev, S A~~]]	+	[[Category: O'Neill EC]]
-	[[Category: Pergolizzi, G]]	+	[[Category: Pergolizzi G]]
-	[[Category: Stevenson~~, C E.M]]~~	+	[[Category: Stevenson CEM]]
-	~~[[Category: Cellodextrin phosphorylase]]~~	+
-	~~[[Category: Cellulose synthesis]]~~	+
-	~~[[Category: Glycoside hydrolase family 94]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 12:14, 26 August 2020

OCA — Wed, 26 Aug 2020 12:14:58 GMT

←Older revision		Revision as of 12:14, 26 August 2020
Line 1:		Line 1:

	==Clostridium thermocellum cellodextrin phosphorylase with cellotetraose and phosphate bound==		==Clostridium thermocellum cellodextrin phosphorylase with cellotetraose and phosphate bound==
-	<StructureSection load='5nz8' size='340' side='right' caption='[[5nz8]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='5nz8' size='340' side='right'caption='[[5nz8]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nz8]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NZ8 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NZ8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nz8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"ruminiclostridium_thermocellum"_(viljoen_et_al._1926)_yutin_and_galperin_2013 "ruminiclostridium thermocellum" (viljoen et al. 1926) yutin and galperin 2013]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NZ8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5NZ8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</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=PO4:PHOSPHATE+ION'>PO4</scene></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=5nz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nz8 OCA], [http://pdbe.org/5nz8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nz8 RCSB], [http://www.ebi.ac.uk/pdbsum/5nz8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nz8 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cdp-ym4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1515 "Ruminiclostridium thermocellum" (Viljoen et al. 1926) Yutin and Galperin 2013])</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=5nz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nz8 OCA], [http://pdbe.org/5nz8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nz8 RCSB], [http://www.ebi.ac.uk/pdbsum/5nz8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nz8 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Field, R A]]		[[Category: Field, R A]]
	[[Category: Lawson, D M]]		[[Category: Lawson, D M]]

OCA at 09:01, 9 August 2017

OCA — Wed, 09 Aug 2017 09:01:39 GMT

←Older revision		Revision as of 09:01, 9 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5nz8 is ~~ON HOLD until Paper~~ Publication	+	==Clostridium thermocellum cellodextrin phosphorylase with cellotetraose and phosphate bound==
		+	<StructureSection load='5nz8' size='340' side='right' caption='[[5nz8]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5nz8]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NZ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NZ8 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=5nz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nz8 OCA], [http://pdbe.org/5nz8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nz8 RCSB], [http://www.ebi.ac.uk/pdbsum/5nz8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nz8 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The GH94 glycoside hydrolase cellodextrin phosphorylase (CDP, EC 2.4.1.49) produces cellodextrin oligomers from short beta-1-->4-glucans and alpha-D-glucose 1-phosphate. Compared to cellobiose phosphorylase (CBP), which produces cellobiose from glucose and alpha-D-glucose 1-phosphate, CDP is biochemically less well characterised. Herein, we investigate the donor and acceptor substrate specificity of recombinant CDP from Ruminiclostridium thermocellum and we isolate and characterise a glucosamine addition product to the cellobiose acceptor with the non-natural donor alpha-D-glucosamine 1-phosphate. In addition, we report the first X-ray crystal structure of CDP, along with comparison to the available structures from CBPs and other closely related enzymes, which contributes to understanding of the key structural features necessary to discriminate between monosaccharide (CBP) and oligosaccharide (CDP) acceptor substrates.

-	~~Authors~~:	+	Cellodextrin phosphorylase from Ruminiclostridium thermocellum: X-ray crystal structure and substrate specificity analysis.,O'Neill EC, Pergolizzi G, Stevenson CEM, Lawson DM, Nepogodiev SA, Field RA Carbohydr Res. 2017 Jul 21. pii: S0008-6215(17)30359-2. doi:, 10.1016/j.carres.2017.07.005. PMID:28760417<ref>PMID:28760417</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5nz8" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Field, R A]]
		+	[[Category: Lawson, D M]]
		+	[[Category: Neill, E C.O]]
		+	[[Category: Nepogodiev, S A]]
		+	[[Category: Pergolizzi, G]]
		+	[[Category: Stevenson, C E.M]]
		+	[[Category: Cellodextrin phosphorylase]]
		+	[[Category: Cellulose synthesis]]
		+	[[Category: Glycoside hydrolase family 94]]
		+	[[Category: Hydrolase]]

OCA: Protected "5nz8" [edit=sysop:move=sysop]

OCA — Wed, 24 May 2017 10:03:00 GMT

Protected "5nz8" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:03, 24 May 2017

OCA: New page: '''Unreleased structure''' The entry 5nz8 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 24 May 2017 10:02:59 GMT

New page: '''Unreleased structure''' The entry 5nz8 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5nz8 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]