4phb - Revision history

OCA at 00:43, 28 December 2023

2023-12-28T00:43:54Z

← Older revision		Revision as of 00:43, 28 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus_ATCC_27405 Acetivibrio thermocellus ATCC 27405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PHB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus_ATCC_27405 Acetivibrio thermocellus ATCC 27405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PHB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</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]] 2.1781Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [https://pdbe.org/4phb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [https://www.ebi.ac.uk/pdbsum/4phb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb 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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [https://pdbe.org/4phb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [https://www.ebi.ac.uk/pdbsum/4phb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb ProSAT]</span></td></tr>
	</table>		</table>

OCA at 13:02, 1 February 2023

2023-02-01T13:02:47Z

← Older revision		Revision as of 13:02, 1 February 2023
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	==Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative==		==Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative==
	<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>		<StructureSection load='4phb' size='340' side='right'caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cloth Cloth~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4PHB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus_ATCC_27405 Acetivibrio thermocellus ATCC 27405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PHB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [https://pdbe.org/4phb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [https://www.ebi.ac.uk/pdbsum/4phb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb ProSAT]</span></td></tr>
	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cthe_2159 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH])~~</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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [~~http~~://pdbe.org/4phb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4phb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/CBDP_ACET2 CBDP_ACET2] Binds cellulosic and pectic substrates. Displays no enzyme activity (in vitro).<ref>PMID:25286843</ref>
	<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: ~~Cloth~~]]		[[Category: Acetivibrio thermocellus ATCC 27405]]
	[[Category: ~~Angelo, S D~~]]		[[Category: Large Structures]]
	[[Category: Bradbury~~, A R.M~~]]		[[Category: Bradbury ARM]]
	[[Category: Close~~, D W~~]]		[[Category: Close DW]]
	[[Category: ~~Beta-helix]]~~		[[Category: D'Angelo S]]
	~~[[Category: Carbohydrate-binding]]~~
	~~[[Category: Gadolinium]]~~
	~~[[Category: Polysaccharide lyase]]~~
	~~[[Category: Unknown function~~]]

OCA at 08:40, 22 November 2017

2017-11-22T08:40:44Z

← Older revision		Revision as of 08:40, 22 November 2017
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	<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>		<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PHB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cloth Cloth]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PHB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cthe_2159 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH])</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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://pdbe.org/4phb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb 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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://pdbe.org/4phb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Cloth]]
	[[Category: Angelo, S D]]		[[Category: Angelo, S D]]
	[[Category: Bradbury, A R.M]]		[[Category: Bradbury, A R.M]]

OCA at 16:34, 11 August 2016

2016-08-11T16:34:59Z

← Older revision		Revision as of 16:34, 11 August 2016
Line 1:		Line 1:

	==Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative==		==Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative==
	<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>		<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb 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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://pdbe.org/4phb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4phb 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 4phb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:59, 24 December 2014

2014-12-24T18:59:45Z

← Older revision		Revision as of 18:59, 24 December 2014
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Angelo, S D.]]		[[Category: Angelo, S D]]
	[[Category: Bradbury, A R.M.]]		[[Category: Bradbury, A R.M]]
	[[Category: Close, D W.]]		[[Category: Close, D W]]
	[[Category: Beta-helix]]		[[Category: Beta-helix]]
	[[Category: Carbohydrate-binding]]		[[Category: Carbohydrate-binding]]

OCA at 08:21, 22 October 2014

2014-10-22T08:21:52Z

← Older revision		Revision as of 08:21, 22 October 2014
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PHB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PHB FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb 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=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb PDBsum]</span></td></tr>
	<table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Microorganisms that degrade biomass produce diverse assortments of carbohydrate-active enzymes and binding modules. Despite tremendous advances in the genomic sequencing of these organisms, many genes do not have an ascribed function owing to low sequence identity to genes that have been annotated. Consequently, biochemical and structural characterization of genes with unknown function is required to complement the rapidly growing pool of genomic sequencing data. A protein with previously unknown function (Cthe_2159) was recently isolated in a genome-wide screen using phage display to identify cellulose-binding protein domains from the biomass-degrading bacterium Clostridium thermocellum. Here, the crystal structure of Cthe_2159 is presented and it is shown that it is a unique right-handed parallel beta-helix protein. Despite very low sequence identity to known beta-helix or carbohydrate-active proteins, Cthe_2159 displays structural features that are very similar to those of polysaccharide lyase (PL) families 1, 3, 6 and 9. Cthe_2159 is conserved across bacteria and some archaea and is a member of the domain of unknown function family DUF4353. This suggests that Cthe_2159 is the first representative of a previously unknown family of cellulose and/or acid-sugar binding beta-helix proteins that share structural similarities with PLs. Importantly, these results demonstrate how functional annotation by biochemical and structural analysis remains a critical tool in the characterization of new gene products.

			A new family of beta-helix proteins with similarities to the polysaccharide lyases.,Close DW, D'Angelo S, Bradbury AR Acta Crystallogr D Biol Crystallogr. 2014 Oct 1;70(Pt 10):2583-92. doi:, 10.1107/S1399004714015934. Epub 2014 Sep 27. PMID:25286843<ref>PMID:25286843</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:55, 27 August 2014

2014-08-27T08:55:09Z

← Older revision		Revision as of 08:55, 27 August 2014
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	'''~~Unreleased structure~~'''		==Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative==
			<StructureSection load='4phb' size='340' side='right' caption='[[4phb]], [[Resolution\|resolution]] 2.18Å' scene=''>
	~~The entry~~ 4phb is ~~ON HOLD until Paper Publication~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[4phb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PHB FirstGlance]. <br>
	~~Authors~~: ~~Close~~, D.W., D'Angelo, S., Bradbury, A.R.M.		</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GD:GADOLINIUM+ATOM'>GD</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4peu\|4peu]]</td></tr>
	~~Description~~: ~~Structure of the polysaccharide lyase~~-~~like protein Cthe_2159 from C. thermocellum,~~ Gadolinium ~~derivative~~		<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4phb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4phb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4phb RCSB], [http://www.ebi.ac.uk/pdbsum/4phb PDBsum]</span></td></tr>
			<table>
			__TOC__
			</StructureSection>
			[[Category: Angelo, S D.]]
			[[Category: Bradbury, A R.M.]]
			[[Category: Close, D W.]]
			[[Category: Beta-helix]]
			[[Category: Carbohydrate-binding]]
			[[Category: Gadolinium]]
			[[Category: Polysaccharide lyase]]
			[[Category: Unknown function]]

OCA at 06:24, 18 June 2014

2014-06-18T06:24:11Z

← Older revision		Revision as of 06:24, 18 June 2014
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Close, D.W., D'Angelo, S., Bradbury, A.R.M.		Authors: Close, D.W., D'Angelo, S., Bradbury, A.R.M.

	Description: Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative		Description: Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative

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

2014-05-14T07:08:13Z

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

← Older revision	Revision as of 07:08, 14 May 2014
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4phb is ON HOLD Authors: Close, D.W., D'Angelo, S., Bradbury, A.R.M. Description: Structure of the polysaccharide lyase-like protein Cthe_2159 from...

2014-05-14T07:08:12Z

New page: '''Unreleased structure''' The entry 4phb is ON HOLD Authors: Close, D.W., D'Angelo, S., Bradbury, A.R.M. Description: Structure of the polysaccharide lyase-like protein Cthe_2159 from...

New page

'''Unreleased structure'''

The entry 4phb is ON HOLD

Authors: Close, D.W., D'Angelo, S., Bradbury, A.R.M.

Description: Structure of the polysaccharide lyase-like protein Cthe_2159 from C. thermocellum, Gadolinium derivative