5zv0 - Revision history

OCA at 09:08, 22 November 2023

OCA — Wed, 22 Nov 2023 09:08:33 GMT

←Older revision		Revision as of 09:08, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5zv0' size='340' side='right'caption='[[5zv0]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5zv0' size='340' side='right'caption='[[5zv0]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zv0]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Salty Salty~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZV0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZV0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zv0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZV0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZV0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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]] 2.1Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h1m\|3h1m]]~~, [[~~2wfp~~\|~~2wfp~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>manA, pmi, STM1467 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=99287 SALTY])</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=5zv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zv0 OCA], [https://pdbe.org/5zv0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zv0 RCSB], [https://www.ebi.ac.uk/pdbsum/5zv0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zv0 ProSAT]</span></td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[http~~:~~//en.wikipedia.org/wiki/Mannose-6-phosphate_isomerase Mannose-6-phosphate isomerase]~~, ~~with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.3.1.8 5.3.1.8]~~ </~~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=5zv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zv0 OCA], [~~http~~://pdbe.org/5zv0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zv0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zv0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zv0 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MANA_SALTY MANA_SALTY]] Involved in the conversion of glucose to GDP-L-fucose, which can be converted to L-fucose, a capsular polysaccharide.	+	[https://www.uniprot.org/uniprot/MANA_SALTY MANA_SALTY] Involved in the conversion of glucose to GDP-L-fucose, which can be converted to L-fucose, a capsular polysaccharide.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Mannose-6-phosphate isomerase]]~~	+	[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
-	~~[[Category: Salty~~]]	+	[[Category: Bangera M]]
-	[[Category: Bangera, M]]	+	[[Category: Murthy MRN]]
-	[[Category: Murthy~~, M R.N]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Sugar binding protein]]~~	+
-	~~[[Category: Zinc binding~~]]	+

OCA at 07:24, 23 May 2019

OCA — Thu, 23 May 2019 07:24:48 GMT

←Older revision		Revision as of 07:24, 23 May 2019
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	<StructureSection load='5zv0' size='340' side='right'caption='[[5zv0]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5zv0' size='340' side='right'caption='[[5zv0]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zv0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZV0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZV0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zv0]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Salty Salty]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZV0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZV0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h1m\|3h1m]], [[2wfp\|2wfp]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h1m\|3h1m]], [[2wfp\|2wfp]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">manA, pmi, STM1467 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=99287 SALTY])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannose-6-phosphate_isomerase Mannose-6-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.8 5.3.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannose-6-phosphate_isomerase Mannose-6-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.8 5.3.1.8] </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=5zv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zv0 OCA], [http://pdbe.org/5zv0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zv0 RCSB], [http://www.ebi.ac.uk/pdbsum/5zv0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zv0 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=5zv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zv0 OCA], [http://pdbe.org/5zv0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zv0 RCSB], [http://www.ebi.ac.uk/pdbsum/5zv0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zv0 ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/MANA_SALTY MANA_SALTY]] Involved in the conversion of glucose to GDP-L-fucose, which can be converted to L-fucose, a capsular polysaccharide.		[[http://www.uniprot.org/uniprot/MANA_SALTY MANA_SALTY]] Involved in the conversion of glucose to GDP-L-fucose, which can be converted to L-fucose, a capsular polysaccharide.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Phosphomannose isomerase (PMI) is a housekeeping enzyme that is found in organisms ranging from bacteria to fungi to mammals and is important for cell-wall synthesis, viability and signalling. PMI is a zinc-dependent enzyme that catalyses the reversible isomerization between mannose 6-phosphate (M6P) and fructose 6-phosphate (F6P), presumably via the formation of a cis-enediol intermediate. The reaction is hypothesized to involve ring opening of M6P, the transfer of a proton from the C2 atom to the C1 atom and between the O1 and O2 atoms of the substrate, followed by ring closure resulting in the product F6P. Several attempts have been made to decipher the role of zinc ions and various residues in the catalytic function of PMI. However, there is no consensus on the catalytic base and the mechanism of the reaction catalyzed by the enzyme. In the present study, based on the structure of PMI from Salmonella typhimurium, site-directed mutagenesis targeting residues close to the bound metal ion and activity studies on the mutants, zinc ions were shown to be crucial for substrate binding. These studies also suggest Lys86 as the most probable catalytic base abstracting the proton in the isomerization reaction. Plausible roles for the highly conserved residues Lys132 and Arg274 could also be discerned based on comparison of the crystal structures of wild-type and mutant PMIs. PMIs from prokaryotes possess a low sequence identity to the human enzyme, ranging between 30% and 40%. Since PMI is important for the virulence of many pathogenic organisms, the identification of catalytically important residues will facilitate its use as a potential antimicrobial drug target.
		+
		+	Structural and functional insights into phosphomannose isomerase: the role of zinc and catalytic residues.,Bangera M, Gowda K G, Sagurthi SR, Murthy MRN Acta Crystallogr D Struct Biol. 2019 May 1;75(Pt 5):475-487. doi:, 10.1107/S2059798319004169. Epub 2019 Apr 29. PMID:31063150<ref>PMID:31063150</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5zv0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Mannose-6-phosphate isomerase]]		[[Category: Mannose-6-phosphate isomerase]]
		+	[[Category: Salty]]
	[[Category: Bangera, M]]		[[Category: Bangera, M]]
	[[Category: Murthy, M R.N]]		[[Category: Murthy, M R.N]]

OCA at 08:40, 1 May 2019

OCA — Wed, 01 May 2019 08:40:56 GMT

←Older revision		Revision as of 08:40, 1 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zv0 is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of E264A mutant of phosphomannose isomerase from Salmonella typhimurium==
-		+	<StructureSection load='5zv0' size='340' side='right'caption='[[5zv0]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5zv0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZV0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZV0 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h1m\|3h1m]], [[2wfp\|2wfp]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannose-6-phosphate_isomerase Mannose-6-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.8 5.3.1.8] </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=5zv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zv0 OCA], [http://pdbe.org/5zv0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zv0 RCSB], [http://www.ebi.ac.uk/pdbsum/5zv0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zv0 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MANA_SALTY MANA_SALTY]] Involved in the conversion of glucose to GDP-L-fucose, which can be converted to L-fucose, a capsular polysaccharide.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Mannose-6-phosphate isomerase]]
		+	[[Category: Bangera, M]]
		+	[[Category: Murthy, M R.N]]
		+	[[Category: Isomerase]]
		+	[[Category: Sugar binding protein]]
		+	[[Category: Zinc binding]]

OCA at 03:52, 30 May 2018

OCA — Wed, 30 May 2018 03:52:00 GMT

←Older revision		Revision as of 03:52, 30 May 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zv0 is ON HOLD	+	The entry 5zv0 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5zv0" [edit=sysop:move=sysop]

OCA — Wed, 16 May 2018 03:55:03 GMT

Protected "5zv0" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:55, 16 May 2018

OCA: New page: '''Unreleased structure''' The entry 5zv0 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 May 2018 03:55:02 GMT

New page: '''Unreleased structure''' The entry 5zv0 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5zv0 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]