5mxf - Revision history

OCA at 17:53, 8 November 2023

OCA — Wed, 08 Nov 2023 17:53:01 GMT

←Older revision		Revision as of 17:53, 8 November 2023
Line 1:		Line 1:

	==Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside==		==Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside==
-	<StructureSection load='5mxf' size='340' side='right' caption='[[5mxf]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5mxf' size='340' side='right'caption='[[5mxf]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mxf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Phoaa Phoaa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MXF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mxf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photorhabdus_asymbiotica_subsp._asymbiotica_ATCC_43949 Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MXF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.9Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAU_00698 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=553480 PHOAA])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=5mxf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxf OCA], [~~http~~://pdbe.org/5mxf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mxf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mxf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxf 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=5mxf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxf OCA], [https://pdbe.org/5mxf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mxf RCSB], [https://www.ebi.ac.uk/pdbsum/5mxf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxf ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C7BLE4_PHOAA C7BLE4_PHOAA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Phoaa~~]]	+	[[Category: Large Structures]]
-	[[Category: Demo, G]]	+	[[Category: Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]]
-	[[Category: Houser, J]]	+	[[Category: Demo G]]
-	[[Category: Jancarikova, G]]	+	[[Category: Houser J]]
-	[[Category: Wimmerova, M]]	+	[[Category: Jancarikova G]]
-	~~[[Category: Fucose binding site]]~~	+	[[Category: Wimmerova M]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Seven-bladed beta-propeller]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 20:41, 24 January 2018

OCA — Wed, 24 Jan 2018 20:41:45 GMT

←Older revision		Revision as of 20:41, 24 January 2018
Line 3:		Line 3:
	<StructureSection load='5mxf' size='340' side='right' caption='[[5mxf]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5mxf' size='340' side='right' caption='[[5mxf]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mxf]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MXF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mxf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MXF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAU_00698 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=553480 PHOAA])</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=5mxf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxf OCA], [http://pdbe.org/5mxf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxf RCSB], [http://www.ebi.ac.uk/pdbsum/5mxf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxf 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=5mxf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxf OCA], [http://pdbe.org/5mxf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxf RCSB], [http://www.ebi.ac.uk/pdbsum/5mxf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxf ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Phoaa]]
	[[Category: Demo, G]]		[[Category: Demo, G]]
	[[Category: Houser, J]]		[[Category: Houser, J]]

OCA at 11:13, 24 August 2017

OCA — Thu, 24 Aug 2017 11:13:10 GMT

←Older revision		Revision as of 11:13, 24 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mxf is ~~ON HOLD until Paper~~ Publication	+	==Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside==
		+	<StructureSection load='5mxf' size='340' side='right' caption='[[5mxf]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mxf]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MXF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MXF FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=5mxf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mxf OCA], [http://pdbe.org/5mxf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mxf RCSB], [http://www.ebi.ac.uk/pdbsum/5mxf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mxf ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Photorhabdus asymbiotica is one of the three recognized species of the Photorhabdus genus, which consists of gram-negative bioluminescent bacteria belonging to the family Morganellaceae. These bacteria live in a symbiotic relationship with nematodes from the genus Heterorhabditis, together forming a complex that is highly pathogenic for insects. Unlike other Photorhabdus species, which are strictly entomopathogenic, P. asymbiotica is unique in its ability to act as an emerging human pathogen. Analysis of the P. asymbiotica genome identified a novel fucose-binding lectin designated PHL with a strong sequence similarity to the recently described P. luminescens lectin PLL. Recombinant PHL exhibited high affinity for fucosylated carbohydrates and the unusual disaccharide 3,6-O-Me2-Glcbeta1-4(2,3-O-Me2)Rhaalpha-O-(p-C6H4)-OCH2CH2NH2 from Mycobacterium leprae. Based on its crystal structure, PHL forms a seven-bladed beta-propeller assembling into a homo-dimer with an inter-subunit disulfide bridge. Investigating complexes with different ligands revealed the existence of two sets of binding sites per monomer-the first type prefers l-fucose and its derivatives, whereas the second type can bind d-galactose. Based on the sequence analysis, PHL could contain up to twelve binding sites per monomer. PHL was shown to interact with all types of red blood cells and insect haemocytes. Interestingly, PHL inhibited the production of reactive oxygen species induced by zymosan A in human blood and antimicrobial activity both in human blood, serum and insect haemolymph. Concurrently, PHL increased the constitutive level of oxidants in the blood and induced melanisation in haemolymph. Our results suggest that PHL might play a crucial role in the interaction of P. asymbiotica with both human and insect hosts.

-	~~Authors: Jancarikova~~, G., Houser, J., ~~Demo~~, G., ~~Wimmerova~~, M.	+	Characterization of novel bangle lectin from Photorhabdus asymbiotica with dual sugar-binding specificity and its effect on host immunity.,Jancarikova G, Houser J, Dobes P, Demo G, Hyrsl P, Wimmerova M PLoS Pathog. 2017 Aug 14;13(8):e1006564. doi: 10.1371/journal.ppat.1006564. PMID:28806750<ref>PMID:28806750</ref>

-	~~Description: Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Wimmerova, M]]~~	+	<div class="pdbe-citations 5mxf" style="background-color:#fffaf0;"></div>
-	~~[[Category: Jancarikova, G]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Demo, G]]		[[Category: Demo, G]]
	[[Category: Houser, J]]		[[Category: Houser, J]]
		+	[[Category: Jancarikova, G]]
		+	[[Category: Wimmerova, M]]
		+	[[Category: Fucose binding site]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lectin]]
		+	[[Category: Seven-bladed beta-propeller]]
		+	[[Category: Sugar binding protein]]

OCA at 11:45, 9 March 2017

OCA — Thu, 09 Mar 2017 11:45:13 GMT

←Older revision		Revision as of 11:45, 9 March 2017
Line 7:		Line 7:
	Description: Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside		Description: Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Houser, J]]
	[[Category: Wimmerova, M]]		[[Category: Wimmerova, M]]
	[[Category: Jancarikova, G]]		[[Category: Jancarikova, G]]
	[[Category: Demo, G]]		[[Category: Demo, G]]
		+	[[Category: Houser, J]]

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

OCA — Wed, 01 Feb 2017 15:20:52 GMT

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

←Older revision

Revision as of 15:20, 1 February 2017

OCA: New page: '''Unreleased structure''' The entry 5mxf is ON HOLD until Paper Publication Authors: Jancarikova, G., Houser, J., Demo, G., Wimmerova, M. Description: Photorhabdus asymbiotica lectin ...

OCA — Wed, 01 Feb 2017 15:20:50 GMT

New page: '''Unreleased structure''' The entry 5mxf is ON HOLD until Paper Publication Authors: Jancarikova, G., Houser, J., Demo, G., Wimmerova, M. Description: Photorhabdus asymbiotica lectin ...

New page

'''Unreleased structure'''

The entry 5mxf is ON HOLD until Paper Publication

Authors: Jancarikova, G., Houser, J., Demo, G., Wimmerova, M.

Description: Photorhabdus asymbiotica lectin (PHL) in complex with alpha-methyl fucoside
[[Category: Unreleased Structures]]
[[Category: Houser, J]]
[[Category: Wimmerova, M]]
[[Category: Jancarikova, G]]
[[Category: Demo, G]]