6mi5 - Revision history

OCA at 07:36, 1 May 2024

OCA — Wed, 01 May 2024 07:36:09 GMT

←Older revision		Revision as of 07:36, 1 May 2024
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	==NMR solution structure of lanmodulin (LanM) complexed with yttrium(III) ions==		==NMR solution structure of lanmodulin (LanM) complexed with yttrium(III) ions==
-	<StructureSection load='6mi5' size='340' side='right'caption='[[6mi5~~]], [[NMR_Ensembles_of_Models \| 12 NMR models~~]]' scene=''>	+	<StructureSection load='6mi5' size='340' side='right'caption='[[6mi5]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Metea Metea~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methylorubrum_extorquens_AM1 Methylorubrum extorquens AM1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene~~></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~MexAM1_META1p1786 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode=5&id~~=~~272630 METEA]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</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=6mi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi5 OCA], [~~http~~://pdbe.org/6mi5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mi5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mi5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi5 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=6mi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi5 OCA], [https://pdbe.org/6mi5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mi5 RCSB], [https://www.ebi.ac.uk/pdbsum/6mi5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi5 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/C5B164_METEA C5B164_METEA]
-	Lanmodulin (LanM) is a high-affinity lanthanide (Ln)-binding protein recently identified in Methylobacterium extorquens, a bacterium that requires Lns for the function of at least two enzymes. LanM possesses four EF-hands, metal coordination motifs generally associated with Ca(II) binding, but it undergoes a metal-dependent conformational change with a 100 million-fold selectivity for Ln(III)s and Y(III) over Ca(II). Here we present the nuclear magnetic resonance solution structure of LanM complexed with Y(III). This structure reveals that LanM features an unusual fusion of adjacent EF-hands, resulting in a compact fold to the best of our knowledge unique among EF-hand-containing proteins. It also supports the importance of an additional carboxylate ligand in contributing to the protein's picomolar affinity for Ln(III)s, and it suggests a role of unusual N i+1-H...N i hydrogen bonds, in which LanM's unique EF-hand proline residues are engaged, in selective Ln(III) recognition. This work sets the stage for a detailed mechanistic understanding of LanM's Ln selectivity, which may inspire new strategies for binding, detecting, and sequestering these technologically important metals.	+
-		+
-	~~Structural Basis for Rare Earth Element Recognition by Methylobacterium extorquens Lanmodulin.,Cook EC, Featherston ER, Showalter SA, Cotruvo JA Jr Biochemistry. 2018 Nov 2. doi~~: ~~10.1021~~/~~acs.biochem.8b01019. PMID:30352145<ref>PMID:30352145<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6mi5" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Metea~~]]	+	[[Category: Methylorubrum extorquens AM1]]
-	[[Category: Cook~~, E C~~]]	+	[[Category: Cook EC]]
-	[[Category: Cotruvo~~, J A~~]]	+	[[Category: Cotruvo Jr JA]]
-	[[Category: Featherson~~, E R~~]]	+	[[Category: Featherson ER]]
-	[[Category: Showalter~~, S A]]~~	+	[[Category: Showalter SA]]
-	~~[[Category: Ef-hand]]~~	+
-	~~[[Category: Lanthanide]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Methylotroph]]~~	+
-	~~[[Category: Periplasm~~]]	+

OCA at 09:34, 30 October 2019

OCA — Wed, 30 Oct 2019 09:34:25 GMT

←Older revision		Revision as of 09:34, 30 October 2019
Line 1:		Line 1:

	==NMR solution structure of lanmodulin (LanM) complexed with yttrium(III) ions==		==NMR solution structure of lanmodulin (LanM) complexed with yttrium(III) ions==
-	<StructureSection load='6mi5' size='340' side='right' caption='[[6mi5]], [[NMR_Ensembles_of_Models \| 12 NMR models]]' scene=''>	+	<StructureSection load='6mi5' size='340' side='right'caption='[[6mi5]], [[NMR_Ensembles_of_Models \| 12 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Metea Metea]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Metea Metea]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Metea]]		[[Category: Metea]]
	[[Category: Cook, E C]]		[[Category: Cook, E C]]

OCA at 09:55, 13 February 2019

OCA — Wed, 13 Feb 2019 09:55:18 GMT

←Older revision		Revision as of 09:55, 13 February 2019
Line 3:		Line 3:
	<StructureSection load='6mi5' size='340' side='right' caption='[[6mi5]], [[NMR_Ensembles_of_Models \| 12 NMR models]]' scene=''>		<StructureSection load='6mi5' size='340' side='right' caption='[[6mi5]], [[NMR_Ensembles_of_Models \| 12 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Metea Metea]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MexAM1_META1p1786 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272630 METEA])</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=6mi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi5 OCA], [http://pdbe.org/6mi5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mi5 RCSB], [http://www.ebi.ac.uk/pdbsum/6mi5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi5 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=6mi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi5 OCA], [http://pdbe.org/6mi5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mi5 RCSB], [http://www.ebi.ac.uk/pdbsum/6mi5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi5 ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Metea]]
	[[Category: Cook, E C]]		[[Category: Cook, E C]]
	[[Category: Cotruvo, J A]]		[[Category: Cotruvo, J A]]

OCA at 12:24, 7 November 2018

OCA — Wed, 07 Nov 2018 12:24:33 GMT

←Older revision		Revision as of 12:24, 7 November 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6mi5 is ~~ON HOLD~~	+	==NMR solution structure of lanmodulin (LanM) complexed with yttrium(III) ions==
		+	<StructureSection load='6mi5' size='340' side='right' caption='[[6mi5]], [[NMR_Ensembles_of_Models \| 12 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6mi5]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MI5 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</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=6mi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi5 OCA], [http://pdbe.org/6mi5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mi5 RCSB], [http://www.ebi.ac.uk/pdbsum/6mi5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi5 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lanmodulin (LanM) is a high-affinity lanthanide (Ln)-binding protein recently identified in Methylobacterium extorquens, a bacterium that requires Lns for the function of at least two enzymes. LanM possesses four EF-hands, metal coordination motifs generally associated with Ca(II) binding, but it undergoes a metal-dependent conformational change with a 100 million-fold selectivity for Ln(III)s and Y(III) over Ca(II). Here we present the nuclear magnetic resonance solution structure of LanM complexed with Y(III). This structure reveals that LanM features an unusual fusion of adjacent EF-hands, resulting in a compact fold to the best of our knowledge unique among EF-hand-containing proteins. It also supports the importance of an additional carboxylate ligand in contributing to the protein's picomolar affinity for Ln(III)s, and it suggests a role of unusual N i+1-H...N i hydrogen bonds, in which LanM's unique EF-hand proline residues are engaged, in selective Ln(III) recognition. This work sets the stage for a detailed mechanistic understanding of LanM's Ln selectivity, which may inspire new strategies for binding, detecting, and sequestering these technologically important metals.

-	~~Authors~~:	+	Structural Basis for Rare Earth Element Recognition by Methylobacterium extorquens Lanmodulin.,Cook EC, Featherston ER, Showalter SA, Cotruvo JA Jr Biochemistry. 2018 Nov 2. doi: 10.1021/acs.biochem.8b01019. PMID:30352145<ref>PMID:30352145</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6mi5" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cook, E C]]
		+	[[Category: Cotruvo, J A]]
		+	[[Category: Featherson, E R]]
		+	[[Category: Showalter, S A]]
		+	[[Category: Ef-hand]]
		+	[[Category: Lanthanide]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Methylotroph]]
		+	[[Category: Periplasm]]

OCA: Protected "6mi5" [edit=sysop:move=sysop]

OCA — Wed, 26 Sep 2018 06:34:54 GMT

Protected "6mi5" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:34, 26 September 2018

OCA: New page: '''Unreleased structure''' The entry 6mi5 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 26 Sep 2018 06:34:52 GMT

New page: '''Unreleased structure''' The entry 6mi5 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6mi5 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]