4jsd - Revision history

OCA at 15:47, 20 September 2023

2023-09-20T15:47:56Z

← Older revision		Revision as of 15:47, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4jsd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JSD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4jsd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JSD 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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PRD_900024:beta-laminaribiose'>PRD_900024</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]] 2.05Å</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PRD_900024:beta-laminaribiose'>PRD_900024</scene></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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [https://pdbe.org/4jsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [https://www.ebi.ac.uk/pdbsum/4jsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jsd 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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [https://pdbe.org/4jsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [https://www.ebi.ac.uk/pdbsum/4jsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jsd ProSAT]</span></td></tr>
	</table>		</table>

OCA at 11:34, 24 November 2022

2022-11-24T11:34:20Z

← Older revision		Revision as of 11:34, 24 November 2022
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	==The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose==		==The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose==
	<StructureSection load='4jsd' size='340' side='right' caption='[[4jsd]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4jsd' size='340' side='right'caption='[[4jsd]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4jsd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thema Thema~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4JSD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4jsd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JSD 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=CA:CALCIUM+ION'>CA</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PRD_900024:beta-laminaribiose'>PRD_900024</scene></td></tr>
	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[4jso\|4jso]], [[2o7i\|2o7i]], [[3i5o\|3i5o]]</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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [https://pdbe.org/4jsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [https://www.ebi.ac.uk/pdbsum/4jsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jsd ProSAT]</span></td></tr>
	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">TM0031, TM_0031 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])~~</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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [~~http~~://pdbe.org/4jsd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4jsd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4jsd ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q9WXN8_THEMA Q9WXN8_THEMA]
	<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: ~~Thema~~]]		[[Category: Large Structures]]
	[[Category: ~~Cuneo, M J~~]]		[[Category: Thermotoga maritima MSB8]]
	[[Category: ~~Munshi, P~~]]		[[Category: Cuneo MJ]]
	[[Category: ~~Cellobiose binding protein]]~~		[[Category: Munshi P]]
	~~[[Category: Cellulose]]~~
	~~[[Category: Periplasmic binding protein]]~~
	~~[[Category: Sugar binding protein]]~~
	~~[[Category: Thermophilic protein~~]]

OCA at 17:58, 11 August 2016

2016-08-11T17:58:06Z

← Older revision		Revision as of 17:58, 11 August 2016
Line 1:		Line 1:

	==The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose==		==The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose==
	<StructureSection load='4jsd' size='340' side='right' caption='[[4jsd]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='4jsd' size='340' side='right' caption='[[4jsd]], [[Resolution\|resolution]] 2.05Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jso\|4jso]], [[2o7i\|2o7i]], [[3i5o\|3i5o]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jso\|4jso]], [[2o7i\|2o7i]], [[3i5o\|3i5o]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TM0031, TM_0031 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TM0031, TM_0031 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [http://www.ebi.ac.uk/pdbsum/4jsd PDBsum]</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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [http://pdbe.org/4jsd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [http://www.ebi.ac.uk/pdbsum/4jsd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4jsd ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 4jsd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:42, 4 January 2015

2015-01-04T12:42:44Z

← Older revision		Revision as of 12:42, 4 January 2015
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	~~{{STRUCTURE_4jsd\| PDB=4jsd \| SCENE= }}~~		==The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose==
	===The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose===		<StructureSection load='4jsd' size='340' side='right' caption='[[4jsd]], [[Resolution\|resolution]] 2.05Å' scene=''>
	~~{{ABSTRACT_PUBMED_24090243}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[4jsd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4JSD 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=CA:CALCIUM+ION'>CA</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4jso\|4jso]], [[2o7i\|2o7i]], [[3i5o\|3i5o]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TM0031, TM_0031 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</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=4jsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4jsd RCSB], [http://www.ebi.ac.uk/pdbsum/4jsd PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			BACKGROUND: Members of the periplasmic binding protein (PBP) superfamily utilize a highly conserved inter-domain ligand binding site that adapts to specifically bind a chemically diverse range of ligands. This paradigm of PBP ligand binding specificity was recently altered when the structure of the Thermotoga maritima cellobiose-binding protein (tmCBP) was solved. The tmCBP binding site is bipartite, comprising a canonical solvent-excluded region (subsite one), adjacent to a solvent-filled cavity (subsite two) where specific and semi-specific ligand recognition occur, respectively. RESULTS: A molecular level understanding of binding pocket adaptation mechanisms that simultaneously allow both ligand specificity at subsite one and promiscuity at subsite two has potentially important implications in ligand binding and drug design studies. We sought to investigate the determinants of ligand binding selectivity in tmCBP through biophysical characterization of tmCBP in the presence of varying beta-glucan oligosaccharides. Crystal structures show that whilst the amino acids that comprise both the tmCBP subsite one and subsite two binding sites remain fixed in conformation regardless of which ligands are present, the rich hydrogen bonding potential of water molecules may facilitate the ordering and the plasticity of this unique PBP binding site. CONCLUSIONS: The identification of the roles these water molecules play in ligand recognition suggests potential mechanisms that can be utilized to adapt a single ligand binding site to recognize multiple distinct ligands.

	~~==About this Structure==~~		Molecular details of ligand selectivity determinants in a promiscuous beta-glucan periplasmic binding protein.,Munshi P, Stanley CB, Ghimire-Rijal S, Lu X, Myles DA, Cuneo MJ BMC Struct Biol. 2013 Oct 4;13:18. doi: 10.1186/1472-6807-13-18. PMID:24090243<ref>PMID:24090243</ref>
	~~[[4jsd]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thema Thema]~~. ~~Full crystallographic information is available from [http~~:~~//oca~~.~~weizmann.ac.il~~/~~oca~~-~~bin~~/~~ocashort?id=4JSD OCA].~~

	==~~Reference~~==		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~<ref group="xtra">PMID:024090243</ref>~~<references ~~group="xtra"~~/><~~references~~/>		</div>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
	[[Category: Thema]]		[[Category: Thema]]
	[[Category: Cuneo, M J.]]		[[Category: Cuneo, M J]]
	[[Category: Munshi, P.]]		[[Category: Munshi, P]]
	[[Category: Cellobiose binding protein]]		[[Category: Cellobiose binding protein]]
	[[Category: Cellulose]]		[[Category: Cellulose]]

OCA at 13:41, 12 March 2014

2014-03-12T13:41:02Z

← Older revision		Revision as of 13:41, 12 March 2014
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	{{STRUCTURE_4jsd\| PDB=4jsd \| SCENE= }}		{{STRUCTURE_4jsd\| PDB=4jsd \| SCENE= }}
	===The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose===		===The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose===
			{{ABSTRACT_PUBMED_24090243}}

	==About this Structure==		==About this Structure==
	[[4jsd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermotoga_maritima_msb8 Thermotoga maritima msb8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA].		[[4jsd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA].
	[[Category: ~~Thermotoga maritima msb8~~]]
			==Reference==
			<ref group="xtra">PMID:024090243</ref><references group="xtra"/><references/>
			[[Category: Thema]]
	[[Category: Cuneo, M J.]]		[[Category: Cuneo, M J.]]
	[[Category: Munshi, P.]]		[[Category: Munshi, P.]]

OCA at 06:39, 10 October 2013

2013-10-10T06:39:06Z

← Older revision		Revision as of 06:39, 10 October 2013
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	~~'''Unreleased~~ structure~~'''~~		{{STRUCTURE_4jsd\| PDB=4jsd \| SCENE= }}
			===The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose===

	~~The entry~~ 4jsd is ~~ON HOLD until Paper Publication~~		==About this Structure==
			[[4jsd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima_msb8 Thermotoga maritima msb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JSD OCA].
	~~Authors~~: ~~Munshi, P.,~~ Cuneo, M.J.		[[Category: Thermotoga maritima msb8]]
			[[Category: Cuneo, M J.]]
	~~Description~~: ~~The X-ray crystal structure of a thermophilic cellobiose~~ binding protein ~~bound with laminaribiose~~		[[Category: Munshi, P.]]
			[[Category: Cellobiose binding protein]]
			[[Category: Cellulose]]
			[[Category: Periplasmic binding protein]]
			[[Category: Sugar binding protein]]
			[[Category: Thermophilic protein]]

OCA at 19:58, 17 April 2013

2013-04-17T19:58:51Z

← Older revision		Revision as of 19:58, 17 April 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4jsd is ON HOLD		The entry 4jsd is ON HOLD until Paper Publication

	Authors: Munshi, P., Cuneo, M.J.		Authors: Munshi, P., Cuneo, M.J.

	Description: The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose		Description: The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose

OCA: Protected "4jsd" [edit=sysop:move=sysop]

2013-04-04T00:59:36Z

Protected "4jsd" [edit=sysop:move=sysop]

← Older revision	Revision as of 00:59, 4 April 2013
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4jsd is ON HOLD Authors: Munshi, P., Cuneo, M.J. Description: The X-ray crystal structure of a thermophilic cellobiose binding protein bound with l...

2013-04-04T00:59:35Z

New page: '''Unreleased structure''' The entry 4jsd is ON HOLD Authors: Munshi, P., Cuneo, M.J. Description: The X-ray crystal structure of a thermophilic cellobiose binding protein bound with l...

New page

'''Unreleased structure'''

The entry 4jsd is ON HOLD

Authors: Munshi, P., Cuneo, M.J.

Description: The X-ray crystal structure of a thermophilic cellobiose binding protein bound with laminaribiose