4ykp - Revision history

OCA at 08:01, 27 September 2023

OCA — Wed, 27 Sep 2023 08:01:59 GMT

←Older revision		Revision as of 08:01, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mnemiopsis_leidyi Mnemiopsis leidyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YKP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mnemiopsis_leidyi Mnemiopsis leidyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YKP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</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]] 1.46Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [https://pdbe.org/4ykp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [https://www.ebi.ac.uk/pdbsum/4ykp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ykp 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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [https://pdbe.org/4ykp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [https://www.ebi.ac.uk/pdbsum/4ykp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ykp ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:17, 3 May 2023

OCA — Wed, 03 May 2023 08:17:11 GMT

←Older revision		Revision as of 08:17, 3 May 2023
Line 3:		Line 3:
	<StructureSection load='4ykp' size='340' side='right'caption='[[4ykp]], [[Resolution\|resolution]] 1.46Å' scene=''>		<StructureSection load='4ykp' size='340' side='right'caption='[[4ykp]], [[Resolution\|resolution]] 1.46Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~American_comb_jelly American comb jelly~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4YKP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mnemiopsis_leidyi Mnemiopsis leidyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YKP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yki\|4yki]], [[4ykj\|4ykj]], [[4ykk\|4ykk]], [[4ykv\|4ykv]]</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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [https://pdbe.org/4ykp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [https://www.ebi.ac.uk/pdbsum/4ykp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ykp ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ML032222a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=27923 American comb jelly])</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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [~~http~~://pdbe.org/4ykp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ykp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ykp ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0R4I973_MNELE A0A0R4I973_MNELE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: American comb jelly]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Alberstein, R G~~]]	+	[[Category: Mnemiopsis leidyi]]
-	[[Category: ~~Mayer, M L~~]]	+	[[Category: Alberstein RG]]
-	[[Category: ~~Glutamate receptor]]~~	+	[[Category: Mayer ML]]
-	~~[[Category: Ion channel]]~~	+
-	~~[[Category: Membrane protein~~]]	+

OCA at 06:59, 12 June 2019

OCA — Wed, 12 Jun 2019 06:59:03 GMT

←Older revision		Revision as of 06:59, 12 June 2019
Line 1:		Line 1:
		+
	==Mnemiopsis leidyi ML032222a iGluR LBD serine complex==		==Mnemiopsis leidyi ML032222a iGluR LBD serine complex==
-	<StructureSection load='4ykp' size='340' side='right' caption='[[4ykp]], [[Resolution\|resolution]] 1.46Å' scene=''>	+	<StructureSection load='4ykp' size='340' side='right'caption='[[4ykp]], [[Resolution\|resolution]] 1.46Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YKP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/American_comb_jelly American comb jelly]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YKP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yki\|4yki]], [[4ykj\|4ykj]], [[4ykk\|4ykk]], [[4ykv\|4ykv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yki\|4yki]], [[4ykj\|4ykj]], [[4ykk\|4ykk]], [[4ykv\|4ykv]]</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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [http://pdbe.org/4ykp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [http://www.ebi.ac.uk/pdbsum/4ykp PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ML032222a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=27923 American comb jelly])</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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [http://pdbe.org/4ykp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [http://www.ebi.ac.uk/pdbsum/4ykp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ykp ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: American comb jelly]]
		+	[[Category: Large Structures]]
	[[Category: Alberstein, R G]]		[[Category: Alberstein, R G]]
	[[Category: Mayer, M L]]		[[Category: Mayer, M L]]

OCA at 20:33, 30 November 2015

OCA — Mon, 30 Nov 2015 20:33:47 GMT

←Older revision		Revision as of 20:33, 30 November 2015
Line 7:		Line 7:
	<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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [http://pdbe.org/4ykp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [http://www.ebi.ac.uk/pdbsum/4ykp 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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [http://pdbe.org/4ykp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [http://www.ebi.ac.uk/pdbsum/4ykp PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Recent genome projects for ctenophores have revealed the presence of numerous ionotropic glutamate receptors (iGluRs) in Mnemiopsis leidyi and Pleurobrachia bachei, among our earliest metazoan ancestors. Sequence alignments and phylogenetic analysis show that these form a distinct clade from the well-characterized AMPA, kainate, and NMDA iGluR subtypes found in vertebrates. Although annotated as glutamate and kainate receptors, crystal structures of the ML032222a and PbiGluR3 ligand-binding domains (LBDs) reveal endogenous glycine in the binding pocket, whereas ligand-binding assays show that glycine binds with nanomolar affinity; biochemical assays and structural analysis establish that glutamate is occluded from the binding cavity. Further analysis reveals ctenophore-specific features, such as an interdomain Arg-Glu salt bridge, present only in subunits that bind glycine, but also a conserved disulfide in loop 1 of the LBD that is found in all vertebrate NMDA but not AMPA or kainate receptors. We hypothesize that ctenophore iGluRs are related to an early ancestor of NMDA receptors, suggesting a common evolutionary path for ctenophores and bilaterian species, and suggest that future work should consider both glycine and glutamate as candidate neurotransmitters in ctenophore species.
		+
		+	Glycine activated ion channel subunits encoded by ctenophore glutamate receptor genes.,Alberstein R, Grey R, Zimmet A, Simmons DK, Mayer ML Proc Natl Acad Sci U S A. 2015 Nov 3;112(44):E6048-57. doi:, 10.1073/pnas.1513771112. Epub 2015 Oct 12. PMID:26460032<ref>PMID:26460032</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4ykp" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 05:30, 22 October 2015

OCA — Thu, 22 Oct 2015 05:30:55 GMT

←Older revision		Revision as of 05:30, 22 October 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Mnemiopsis leidyi ML032222a iGluR LBD serine complex==
-		+	<StructureSection load='4ykp' size='340' side='right' caption='[[4ykp]], [[Resolution\|resolution]] 1.46Å' scene=''>
-	~~The entry~~ 4ykp is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4ykp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YKP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YKP FirstGlance]. <br>
-	~~Authors~~: ~~Alberstein~~, R.G., ~~Mayer~~, M.L.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4yki\|4yki]], [[4ykj\|4ykj]], [[4ykk\|4ykk]], [[4ykv\|4ykv]]</td></tr>
-	~~Description:~~	+	<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=4ykp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ykp OCA], [http://pdbe.org/4ykp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ykp RCSB], [http://www.ebi.ac.uk/pdbsum/4ykp PDBsum]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: Mayer, M.L]]	+	__TOC__
-	[[Category: ~~Alberstein, R.G~~]]	+	</StructureSection>
		+	[[Category: Alberstein, R G]]
		+	[[Category: Mayer, M L]]
		+	[[Category: Glutamate receptor]]
		+	[[Category: Ion channel]]
		+	[[Category: Membrane protein]]

OCA at 12:31, 26 March 2015

OCA — Thu, 26 Mar 2015 12:31:35 GMT

←Older revision		Revision as of 12:31, 26 March 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4ykp is ON HOLD	+	The entry 4ykp is ON HOLD until Paper Publication

-	Authors: Alberstein, R.G, Mayer, M.L.	+	Authors: Alberstein, R.G., Mayer, M.L.

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Alberstein, R.G~~, Mayer, M.L~~]]	+	[[Category: Mayer, M.L]]
		+	[[Category: Alberstein, R.G]]

OCA: Protected "4ykp" [edit=sysop:move=sysop]

OCA — Wed, 11 Mar 2015 10:46:17 GMT

Protected "4ykp" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:46, 11 March 2015

OCA: New page: '''Unreleased structure''' The entry 4ykp is ON HOLD Authors: Alberstein, R.G, Mayer, M.L. Description: Category: Unreleased Structures Category: Alberstein, R.G, Mayer, M.L

OCA — Wed, 11 Mar 2015 10:46:16 GMT

New page: '''Unreleased structure''' The entry 4ykp is ON HOLD Authors: Alberstein, R.G, Mayer, M.L. Description: Category: Unreleased Structures Category: Alberstein, R.G, Mayer, M.L

New page

'''Unreleased structure'''

The entry 4ykp is ON HOLD

Authors: Alberstein, R.G, Mayer, M.L.

Description:
[[Category: Unreleased Structures]]
[[Category: Alberstein, R.G, Mayer, M.L]]