3wtm - Revision history

OCA at 05:30, 10 August 2022

OCA — Wed, 10 Aug 2022 05:30:59 GMT

←Older revision		Revision as of 05:30, 10 August 2022
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	==Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid==		==Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid==
-	<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>	+	<StructureSection load='3wtm' size='340' side='right'caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3wtm]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Great_pond_snail Great pond snail]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WTM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3WTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3wtm]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Great_pond_snail Great pond snail]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WTM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</div></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=3wtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wtm OCA], [~~http~~://pdbe.org/3wtm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3wtm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3wtm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3wtm 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=3wtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wtm OCA], [https://pdbe.org/3wtm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3wtm RCSB], [https://www.ebi.ac.uk/pdbsum/3wtm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3wtm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ACHP_LYMST ACHP_LYMST]] Binds to acetylcholine. Modulates neuronal synaptic transmission.	+	[[https://www.uniprot.org/uniprot/ACHP_LYMST ACHP_LYMST]] Binds to acetylcholine. Modulates neuronal synaptic transmission.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:

	==See Also==		==See Also==
-	*[[Acetylcholine binding protein\|Acetylcholine binding protein]]	+	*[[Acetylcholine binding protein 3D structures\|Acetylcholine binding protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Great pond snail]]		[[Category: Great pond snail]]
		+	[[Category: Large Structures]]
	[[Category: Ihara, M]]		[[Category: Ihara, M]]
	[[Category: Matsuda, K]]		[[Category: Matsuda, K]]

OCA at 09:43, 21 February 2019

OCA — Thu, 21 Feb 2019 09:43:27 GMT

←Older revision		Revision as of 09:43, 21 February 2019
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	<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>		<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3wtm]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3WTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3wtm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Great_pond_snail Great pond snail]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3WTM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</td></tr>
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 3wtm" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3wtm" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Acetylcholine binding protein\|Acetylcholine binding protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Great pond snail]]
	[[Category: Ihara, M]]		[[Category: Ihara, M]]
	[[Category: Matsuda, K]]		[[Category: Matsuda, K]]

OCA at 13:09, 11 August 2016

OCA — Thu, 11 Aug 2016 13:09:35 GMT

←Older revision		Revision as of 13:09, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid==		==Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid==
	<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>		<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</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=3wtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wtm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3wtm RCSB], [http://www.ebi.ac.uk/pdbsum/3wtm 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=3wtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wtm OCA], [http://pdbe.org/3wtm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3wtm RCSB], [http://www.ebi.ac.uk/pdbsum/3wtm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3wtm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	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 3wtm" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:47, 7 February 2015

OCA — Sat, 07 Feb 2015 15:47:56 GMT

←Older revision		Revision as of 15:47, 7 February 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid==
		+	<StructureSection load='3wtm' size='340' side='right' caption='[[3wtm]], [[Resolution\|resolution]] 2.48Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3wtm]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3WTM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=N1Y:2-CHLORO-5-{[(2E)-2-(NITROMETHYLIDENE)IMIDAZOLIDIN-1-YL]METHYL}PYRIDINE'>N1Y</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zju\|2zju]], [[2zjv\|2zjv]], [[3wth\|3wth]], [[3wti\|3wti]], [[3wtj\|3wtj]], [[3wtk\|3wtk]], [[3wtl\|3wtl]], [[3wtn\|3wtn]], [[3wto\|3wto]]</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=3wtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wtm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3wtm RCSB], [http://www.ebi.ac.uk/pdbsum/3wtm PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ACHP_LYMST ACHP_LYMST]] Binds to acetylcholine. Modulates neuronal synaptic transmission.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Neonicotinoid insecticides target insect nicotinic acetylcholine receptors (nAChRs). Their widespread use and possible risks to pollinators make it extremely urgent to understand the mechanisms underlying their actions on insect nAChRs. We therefore elucidated X-ray crystal structures of the Lymnaea stagnalis acetylcholine binding protein (Ls-AChBP) and its Gln55Arg mutant, more closely resembling insect nAChRs, in complex with a nitromethylene imidacloprid analog (CH-IMI) and desnitro-imidacloprid metabolite (DN-IMI) as well as commercial neonicotinoids, imidacloprid, clothianidin, and thiacloprid. Unlike imidacloprid, clothianidin, and CH-IMI, thiacloprid did not stack with Tyr185 in the wild-type Ls-AChBP, but did in the Gln55Arg mutant, interacting electrostatically with Arg55. In contrast, DN-IMI lacking the NO2 group was directed away from Lys34 and Arg55 to form hydrogen bonds with Tyr89 in loop A and the main chain carbonyl of Trp143 in loop B. Unexpectedly, we found that several neonicotinoids interacted with Lys34 in loop G on the beta1 strand in the crystal structure of the Gln55Arg mutant. Basic residues introduced into the alpha7 nAChR at positions equivalent to AChBP Lys34 and Arg55 enhanced agonist actions of neonicotinoids, while reducing the actions of acetylcholine, (-)-nicotine, and DN-IMI. Thus, not only the basic residues in loop D, but also those in loop G determine the actions of neonicotinoids. These novel findings provide new insights into the modes of action of neonicotinoids and emerging derivatives.

-	~~The entry 3wtm is ON HOLD until Paper Publication~~	+	Studies on an acetylcholine binding protein identify a basic residue in loop G on the beta1 strand as a new structural determinant of neonicotinoid actions.,Ihara M, Okajima T, Yamashita A, Oda T, Asano T, Matsui M, Sattelle DB, Matsuda K Mol Pharmacol. 2014 Dec;86(6):736-46. doi: 10.1124/mol.114.094698. Epub 2014 Sep , 29. PMID:25267717<ref>PMID:25267717</ref>

-	~~Authors: Okajima~~, T.~~, Ihara, M~~.~~, Yamashita, A., Oda, T., Matsuda, K~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ihara, M]]
		+	[[Category: Matsuda, K]]
	[[Category: Oda, T]]		[[Category: Oda, T]]
-	[[Category: ~~Matsuda~~, ~~K]]~~	+	[[Category: Okajima, T]]
-	~~[[Category: Ihara, M~~]]	+
	[[Category: Yamashita, A]]		[[Category: Yamashita, A]]
-	[[Category: ~~Okajima, T~~]]	+	[[Category: Acetylcholine binding]]
		+	[[Category: Imidacloprid]]
		+	[[Category: Neonicotinoid]]
		+	[[Category: Nicotinic acetylcholine receptor]]
		+	[[Category: Signaling protein]]

OCA at 12:58, 24 December 2014

OCA — Wed, 24 Dec 2014 12:58:21 GMT

←Older revision		Revision as of 12:58, 24 December 2014
Line 6:		Line 6:

	Description: Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid		Description: Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid
		+	[[Category: Unreleased Structures]]
		+	[[Category: Oda, T]]
		+	[[Category: Matsuda, K]]
		+	[[Category: Ihara, M]]
		+	[[Category: Yamashita, A]]
		+	[[Category: Okajima, T]]

OCA at 07:15, 5 November 2014

OCA — Wed, 05 Nov 2014 07:15:08 GMT

←Older revision		Revision as of 07:15, 5 November 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3wtm is ON HOLD	+	The entry 3wtm is ON HOLD until Paper Publication

	Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K.		Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K.

	Description: Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid		Description: Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid

OCA at 06:02, 8 October 2014

OCA — Wed, 08 Oct 2014 06:02:30 GMT

←Older revision		Revision as of 06:02, 8 October 2014
Line 5:		Line 5:
	Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K.		Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K.

-	Description: Crystal Structure of Lymnaea ~~stagnates~~ Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid	+	Description: Crystal Structure of Lymnaea stagnalis Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid

OCA: Protected "3wtm" [edit=sysop:move=sysop]

OCA — Wed, 23 Apr 2014 07:01:48 GMT

Protected "3wtm" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:01, 23 April 2014

OCA: New page: '''Unreleased structure''' The entry 3wtm is ON HOLD Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K. Description: Crystal Structure of Lymnaea stagnates Acetylchol...

OCA — Wed, 23 Apr 2014 07:01:47 GMT

New page: '''Unreleased structure''' The entry 3wtm is ON HOLD Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K. Description: Crystal Structure of Lymnaea stagnates Acetylchol...

New page

'''Unreleased structure'''

The entry 3wtm is ON HOLD

Authors: Okajima, T., Ihara, M., Yamashita, A., Oda, T., Matsuda, K.

Description: Crystal Structure of Lymnaea stagnates Acetylcholine-Binding Protein Q55R Mutant Complexed with Nitromethylene Analogue of Imidacloprid