7bbc - Revision history

OCA at 09:20, 9 October 2024

2024-10-09T09:20:55Z

← Older revision		Revision as of 09:20, 9 October 2024
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	<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>~~[[7bbc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photorhabdus_laumondii Photorhabdus laumondii].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Hybrid , Neutron Diffraction , X-ray diffraction, [[Resolution\|Resolution]] 1.84Å</td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Hybrid , Neutron Diffraction , X-ray diffraction, [[Resolution\|Resolution]] 1.84Å</td></tr>
	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</scene></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc 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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc ProSAT]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	~~[https://www.uniprot.org/uniprot/Q7N8J0_PHOLL Q7N8J0_PHOLL]~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Photorhabdus laumondii]]~~
	[[Category: Blakeley MP]]		[[Category: Blakeley MP]]
	[[Category: Devos JM]]		[[Category: Devos JM]]

OCA at 07:47, 1 May 2024

2024-05-01T07:47:55Z

← Older revision		Revision as of 07:47, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7bbc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ccm_7076 Ccm 7076~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>		<table><tr><td colspan='2'>[[7bbc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photorhabdus_laumondii Photorhabdus laumondii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FUC:ALPHA-L~~-~~FUCOSE'>FUC</scene>~~, ~~<scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</scene>~~</td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Hybrid , Neutron Diffraction , X-ray diffraction, [[Resolution\|Resolution]] 1.84Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~CKY10_20885 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=2218628 CCM 7076])~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc 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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style~~=~~"background-color:#fffaf0;">~~		== Function ==
	== ~~Publication Abstract from PubMed~~ ==		[https://www.uniprot.org/uniprot/Q7N8J0_PHOLL Q7N8J0_PHOLL]
	Carbohydrate-binding proteins from pathogenic bacteria and fungi have been shown to be implicated in various pathological processes, where they interact with glycans present on the surface of the host cells. These interactions are part of the initial processes of infection of the host and are very important to study at the atomic level. Here, we report the room temperature neutron structures of PLL lectin from Photorhabdus laumondii in its apo form and in complex with deuterated L-fucose, which is, to our knowledge, the first neutron structure of a carbohydrate-binding protein in complex with a fully deuterated carbohydrate ligand. A detailed structural analysis of the lectin-carbohydrate interactions provides information on the hydrogen bond network, the role of water molecules, and the extent of the CH-pi stacking interactions between fucose and the aromatic amino acids in the binding site.

	Visualization of hydrogen atoms in a perdeuterated lectin-fucose complex reveals key details of protein-carbohydrate interactions.,Gajdos L, Blakeley MP, Kumar A, Wimmerova M, Haertlein M, Forsyth VT, Imberty A, Devos JM Structure. 2021 Mar 24. pii: S0969-2126(21)00076-9. doi:, 10.1016/j.str.2021.03.003. PMID:~~33765407<ref>PMID:33765407<~~/~~ref>~~

	~~From MEDLINE®~~/~~PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~
	</~~div>~~
	~~<div class="pdbe-citations 7bbc" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references~~/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Ccm 7076]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Blakeley~~, M P~~]]		[[Category: Photorhabdus laumondii]]
	[[Category: Devos~~, J M~~]]		[[Category: Blakeley MP]]
	[[Category: Forsyth~~, V T~~]]		[[Category: Devos JM]]
	[[Category: Gajdos, L]]		[[Category: Forsyth VT]]
	[[Category: Haertlein, M]]		[[Category: Gajdos L]]
	[[Category: Imberty, A]]		[[Category: Haertlein M]]
	[[Category: Kumar, A]]		[[Category: Imberty A]]
	[[Category: Wimmerova, M]]		[[Category: Kumar A]]
	~~[[Category: Complex]]~~		[[Category: Wimmerova M]]
	~~[[Category: Propeller]]~~
	~~[[Category: Sugar binding protein~~]]

OCA at 07:01, 14 April 2021

2021-04-14T07:01:08Z

← Older revision		Revision as of 07:01, 14 April 2021
Line 1:		Line 1:

	==Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose==		==Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose==
	<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]]' scene=''>		<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>		<table><tr><td colspan='2'>[[7bbc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ccm_7076 Ccm 7076]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>
	</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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc ProSAT]</span></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=FUL:BETA-L-FUCOSE'>FUL</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CKY10_20885 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2218628 CCM 7076])</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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Carbohydrate-binding proteins from pathogenic bacteria and fungi have been shown to be implicated in various pathological processes, where they interact with glycans present on the surface of the host cells. These interactions are part of the initial processes of infection of the host and are very important to study at the atomic level. Here, we report the room temperature neutron structures of PLL lectin from Photorhabdus laumondii in its apo form and in complex with deuterated L-fucose, which is, to our knowledge, the first neutron structure of a carbohydrate-binding protein in complex with a fully deuterated carbohydrate ligand. A detailed structural analysis of the lectin-carbohydrate interactions provides information on the hydrogen bond network, the role of water molecules, and the extent of the CH-pi stacking interactions between fucose and the aromatic amino acids in the binding site.

			Visualization of hydrogen atoms in a perdeuterated lectin-fucose complex reveals key details of protein-carbohydrate interactions.,Gajdos L, Blakeley MP, Kumar A, Wimmerova M, Haertlein M, Forsyth VT, Imberty A, Devos JM Structure. 2021 Mar 24. pii: S0969-2126(21)00076-9. doi:, 10.1016/j.str.2021.03.003. PMID:33765407<ref>PMID:33765407</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7bbc" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Ccm 7076]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Blakeley MP]]		[[Category: Blakeley, M P]]
	[[Category: Devos JM]]		[[Category: Devos, J M]]
	[[Category: Forsyth VT]]		[[Category: Forsyth, V T]]
	[[Category: Gajdos L]]		[[Category: Gajdos, L]]
	[[Category: Haertlein M]]		[[Category: Haertlein, M]]
	[[Category: Imberty A]]		[[Category: Imberty, A]]
	[[Category: Kumar A]]		[[Category: Kumar, A]]
	[[Category: Wimmerova M]]		[[Category: Wimmerova, M]]
			[[Category: Complex]]
			[[Category: Propeller]]
			[[Category: Sugar binding protein]]

OCA at 06:39, 24 March 2021

2021-03-24T06:39:26Z

← Older revision		Revision as of 06:39, 24 March 2021
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 7bbc is ~~ON HOLD until Paper Publication~~		==Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose==
			<StructureSection load='7bbc' size='340' side='right'caption='[[7bbc]]' scene=''>
	~~Authors~~: ~~Gajdos~~, L.~~, Blakeley, M~~.P., ~~Kumar~~, A.~~, Wimmerova, M~~.~~, Haertlein, M~~., ~~Forsyth, V~~.T.~~, Imberty, A~~., ~~Devos, J~~.M.		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BBC FirstGlance]. <br>
	~~Description: Joint X-ray~~/~~neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose~~		</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=7bbc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bbc OCA], [https://pdbe.org/7bbc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bbc RCSB], [https://www.ebi.ac.uk/pdbsum/7bbc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bbc ProSAT]</span></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		</table>
	[[Category: ~~Haertlein, M~~]]		__TOC__
	[[Category: ~~Blakeley, M.P~~]]		</StructureSection>
	[[Category: ~~Wimmerova, M~~]]		[[Category: Large Structures]]
	[[Category: ~~Kumar, A~~]]		[[Category: Blakeley MP]]
	[[Category: ~~Gajdos, L~~]]		[[Category: Devos JM]]
	[[Category: ~~Forsyth, V.T~~]]		[[Category: Forsyth VT]]
	[[Category: ~~Devos, J.M~~]]		[[Category: Gajdos L]]
	[[Category: ~~Imberty, A~~]]		[[Category: Haertlein M]]
			[[Category: Imberty A]]
			[[Category: Kumar A]]
			[[Category: Wimmerova M]]

OCA at 06:35, 20 January 2021

2021-01-20T06:35:08Z

← Older revision		Revision as of 06:35, 20 January 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7bbc is ON HOLD		The entry 7bbc is ON HOLD until Paper Publication

	Authors: Gajdos, L., Blakeley, M.P., Kumar, A., Wimmerova, M., Haertlein, M., Forsyth, V.T., Imberty, A., Devos, J.M.		Authors: Gajdos, L., Blakeley, M.P., Kumar, A., Wimmerova, M., Haertlein, M., Forsyth, V.T., Imberty, A., Devos, J.M.
Line 7:		Line 7:
	Description: Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose		Description: Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
			[[Category: Haertlein, M]]
			[[Category: Blakeley, M.P]]
	[[Category: Wimmerova, M]]		[[Category: Wimmerova, M]]
	~~[[Category: Forsyth, V.T]]~~
	~~[[Category: Haertlein, M]]~~
	[[Category: Kumar, A]]		[[Category: Kumar, A]]
	[[Category: Gajdos, L]]		[[Category: Gajdos, L]]
			[[Category: Forsyth, V.T]]
			[[Category: Devos, J.M]]
	[[Category: Imberty, A]]		[[Category: Imberty, A]]
	~~[[Category: Blakeley, M.P]]~~
	~~[[Category: Devos, J.M]]~~

OCA: Protected "7bbc" [edit=sysop:move=sysop]

2020-12-24T07:49:37Z

Protected "7bbc" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:49, 24 December 2020
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7bbc is ON HOLD Authors: Gajdos, L., Blakeley, M.P., Kumar, A., Wimmerova, M., Haertlein, M., Forsyth, V.T., Imberty, A., Devos, J.M. Description: ...

2020-12-24T07:49:35Z

New page: '''Unreleased structure''' The entry 7bbc is ON HOLD Authors: Gajdos, L., Blakeley, M.P., Kumar, A., Wimmerova, M., Haertlein, M., Forsyth, V.T., Imberty, A., Devos, J.M. Description: ...

New page

'''Unreleased structure'''

The entry 7bbc is ON HOLD

Authors: Gajdos, L., Blakeley, M.P., Kumar, A., Wimmerova, M., Haertlein, M., Forsyth, V.T., Imberty, A., Devos, J.M.

Description: Joint X-ray/neutron room temperature structure of perdeuterated PLL lectin in complex with perdeuterated L-fucose
[[Category: Unreleased Structures]]
[[Category: Wimmerova, M]]
[[Category: Forsyth, V.T]]
[[Category: Haertlein, M]]
[[Category: Kumar, A]]
[[Category: Gajdos, L]]
[[Category: Imberty, A]]
[[Category: Blakeley, M.P]]
[[Category: Devos, J.M]]