4gpa - Revision history

OCA at 07:09, 26 October 2022

2022-10-26T07:09:11Z

←Older revision		Revision as of 07:09, 26 October 2022
Line 1:		Line 1:

	==High resolution structure of the GluA4 N-terminal domain (NTD)==		==High resolution structure of the GluA4 N-terminal domain (NTD)==
-	<StructureSection load='4gpa' size='340' side='right' caption='[[4gpa]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='4gpa' size='340' side='right'caption='[[4gpa]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4gpa]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4GPA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4gpa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GPA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3hsy\|3hsy]], [[3o21\|3o21]]</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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [https://pdbe.org/4gpa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [https://www.ebi.ac.uk/pdbsum/4gpa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4gpa ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Glur4, Gria4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [~~http~~://pdbe.org/4gpa PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4gpa PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4gpa ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GRIA4_RAT GRIA4_RAT]] Receptor for glutamate that functions as ligand-gated ion channel in the central nervous system and plays an important role in excitatory synaptic transmission. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. Binding of the excitatory neurotransmitter L-glutamate induces a conformation change, leading to the opening of the cation channel, and thereby converts the chemical signal to an electrical impulse. The receptor then desensitizes rapidly and enters a transient inactive state, characterized by the presence of bound agonist. In the presence of CACNG4 or CACNG7 or CACNG8, shows resensitization which is characterized by a delayed accumulation of current flux upon continued application of glutamate (By similarity).<ref>PMID:12603841</ref> <ref>PMID:19102704</ref> <ref>PMID:20107073</ref>	+	[https://www.uniprot.org/uniprot/GRIA4_RAT GRIA4_RAT] Receptor for glutamate that functions as ligand-gated ion channel in the central nervous system and plays an important role in excitatory synaptic transmission. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. Binding of the excitatory neurotransmitter L-glutamate induces a conformation change, leading to the opening of the cation channel, and thereby converts the chemical signal to an electrical impulse. The receptor then desensitizes rapidly and enters a transient inactive state, characterized by the presence of bound agonist. In the presence of CACNG4 or CACNG7 or CACNG8, shows resensitization which is characterized by a delayed accumulation of current flux upon continued application of glutamate (By similarity).<ref>PMID:12603841</ref> <ref>PMID:19102704</ref> <ref>PMID:20107073</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 20:

	==See Also==		==See Also==
-	*[[~~Ionotropic~~ Glutamate ~~Receptors~~\|~~Ionotropic~~ Glutamate ~~Receptors~~]]	+	*[[Glutamate receptor 3D structures\|Glutamate receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Buffalo rat~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Greger, I H~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Sukumaran, M~~]]	+	[[Category: Greger IH]]
-	[[Category: ~~Cell membrane]]~~	+	[[Category: Sukumaran M]]
-	~~[[Category: Ckamp44]]~~	+
-	~~[[Category: Cornichon]]~~	+
-	~~[[Category: Extracellular space]]~~	+
-	~~[[Category: Glutamate receptor]]~~	+
-	~~[[Category: Glycosylation]]~~	+
-	~~[[Category: Ion transport]]~~	+
-	~~[[Category: Ligand-gated ion channel]]~~	+
-	~~[[Category: Pbp fold]]~~	+
-	~~[[Category: Rna editing]]~~	+
-	~~[[Category: Synapse]]~~	+
-	~~[[Category: Tarp]]~~	+
-	~~[[Category: Transmembrane ampa receptor regulating protein]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 14:57, 4 August 2016

2016-08-04T14:57:15Z

←Older revision		Revision as of 14:57, 4 August 2016
Line 1:		Line 1:
		+
	==High resolution structure of the GluA4 N-terminal domain (NTD)==		==High resolution structure of the GluA4 N-terminal domain (NTD)==
	<StructureSection load='4gpa' size='340' side='right' caption='[[4gpa]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='4gpa' size='340' side='right' caption='[[4gpa]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4gpa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GPA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4gpa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GPA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3hsy\|3hsy]], [[3o21\|3o21]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3hsy\|3hsy]], [[3o21\|3o21]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Glur4, Gria4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Glur4, Gria4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [http://www.ebi.ac.uk/pdbsum/4gpa 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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [http://pdbe.org/4gpa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [http://www.ebi.ac.uk/pdbsum/4gpa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4gpa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 4gpa" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Greger, I H]]		[[Category: Greger, I H]]
	[[Category: Sukumaran, M]]		[[Category: Sukumaran, M]]

OCA at 16:02, 24 December 2014

2014-12-24T16:02:15Z

←Older revision		Revision as of 16:02, 24 December 2014
Line 8:		Line 8:
	<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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [http://www.ebi.ac.uk/pdbsum/4gpa 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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [http://www.ebi.ac.uk/pdbsum/4gpa PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GRIA4_RAT GRIA4_RAT]] Receptor for glutamate that functions as ligand-gated ion channel in the central nervous system and plays an important role in excitatory synaptic transmission. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. Binding of the excitatory neurotransmitter L-glutamate induces a conformation change, leading to the opening of the cation channel, and thereby converts the chemical signal to an electrical impulse. The receptor then desensitizes rapidly and enters a transient inactive state, characterized by the presence of bound agonist. In the presence of CACNG4 or CACNG7 or CACNG8, shows resensitization which is characterized by a delayed accumulation of current flux upon continued application of glutamate (By similarity).<ref>PMID:12603841</ref> <ref>PMID:19102704</ref> <ref>PMID:20107073</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 09:44, 10 December 2014

2014-12-10T09:44:22Z

←Older revision		Revision as of 09:44, 10 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4gpa.~~png~~\|~~left~~\|~~200px~~]]	+	==High resolution structure of the GluA4 N-terminal domain (NTD)==
		+	<StructureSection load='4gpa' size='340' side='right' caption='[[4gpa]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4gpa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GPA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3hsy\|3hsy]], [[3o21\|3o21]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Glur4, Gria4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=4gpa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gpa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4gpa RCSB], [http://www.ebi.ac.uk/pdbsum/4gpa PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ionotropic glutamate receptors (iGluRs) harbor two extracellular domains: the membrane-proximal ligand-binding domain (LBD) and the distal N-terminal domain (NTD). These are involved in signal sensing: the LBD binds L-glutamate, which activates the receptor channel. Ligand binding to the NTD modulates channel function in the NMDA receptor subfamily of iGluRs, which has not been observed for the AMPAR subfamily to date. Structural data suggest that AMPAR NTDs are packed into tight dimers and have lost their signaling potential. Here, we assess NTD dynamics from both subfamilies, using a variety of computational tools. We describe the conformational motions that underly NMDAR NTD allosteric signaling. Unexpectedly, AMPAR NTDs are capable of undergoing similar dynamics; although dimerization imposes restrictions, the two subfamilies sample similar, interconvertible conformational subspaces. Finally, we solve the crystal structure of AMPAR GluA4 NTD, and combined with molecular dynamics simulations, we characterize regions pivotal for an as-yet-unexplored dynamic spectrum of AMPAR NTDs.

-	~~{{STRUCTURE_4gpa\| PDB=4gpa \| SCENE= }}~~	+	Comparative Dynamics of NMDA- and AMPA-Glutamate Receptor N-Terminal Domains.,Dutta A, Shrivastava IH, Sukumaran M, Greger IH, Bahar I Structure. 2012 Sep 5. PMID:22959625<ref>PMID:22959625</ref>

-	~~===High resolution structure~~ of the ~~GluA4 N-terminal domain (NTD)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_22959625}}~~	+	==See Also==
-		+	*[[Ionotropic Glutamate Receptors\|Ionotropic Glutamate Receptors]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~4gpa~~]] ~~is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA].~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Greger, I H.]]	+	[[Category: Greger, I H]]
-	[[Category: Sukumaran, M.]]	+	[[Category: Sukumaran, M]]
	[[Category: Cell membrane]]		[[Category: Cell membrane]]
	[[Category: Ckamp44]]		[[Category: Ckamp44]]

OCA at 21:34, 12 December 2012

2012-12-12T21:34:31Z

←Older revision		Revision as of 21:34, 12 December 2012
Line 1:		Line 1:
-	[[Image:4gpa.~~jpg~~\|left\|200px]]	+	[[Image:4gpa.png\|left\|200px]]

	{{STRUCTURE_4gpa\| PDB=4gpa \| SCENE= }}		{{STRUCTURE_4gpa\| PDB=4gpa \| SCENE= }}

OCA at 07:36, 24 October 2012

2012-10-24T07:36:10Z

←Older revision		Revision as of 07:36, 24 October 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4gpa.jpg\|left\|200px]]

-	~~The entry~~ 4gpa ~~is ON HOLD~~	+	{{STRUCTURE_4gpa\| PDB=4gpa \| SCENE= }}

-	~~Authors: Sukumaran, M., Greger, I.H.~~	+	===High resolution structure of the GluA4 N-terminal domain (NTD)===

-	~~Description: High resolution~~ structure ~~of the GluA4 N~~-~~terminal domain (NTD)~~	+	{{ABSTRACT_PUBMED_22959625}}
		+
		+	==About this Structure==
		+	[[4gpa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GPA OCA].
		+	[[Category: Rattus norvegicus]]
		+	[[Category: Greger, I H.]]
		+	[[Category: Sukumaran, M.]]
		+	[[Category: Cell membrane]]
		+	[[Category: Ckamp44]]
		+	[[Category: Cornichon]]
		+	[[Category: Extracellular space]]
		+	[[Category: Glutamate receptor]]
		+	[[Category: Glycosylation]]
		+	[[Category: Ion transport]]
		+	[[Category: Ligand-gated ion channel]]
		+	[[Category: Pbp fold]]
		+	[[Category: Rna editing]]
		+	[[Category: Synapse]]
		+	[[Category: Tarp]]
		+	[[Category: Transmembrane ampa receptor regulating protein]]
		+	[[Category: Transport protein]]

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

2012-08-29T04:49:42Z

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

←Older revision

Revision as of 04:49, 29 August 2012

OCA: New page: '''Unreleased structure''' The entry 4gpa is ON HOLD Authors: Sukumaran, M., Greger, I.H. Description: High resolution structure of the GluA4 N-terminal domain (NTD)

2012-08-29T04:49:41Z

New page: '''Unreleased structure''' The entry 4gpa is ON HOLD Authors: Sukumaran, M., Greger, I.H. Description: High resolution structure of the GluA4 N-terminal domain (NTD)

New page

'''Unreleased structure'''

The entry 4gpa is ON HOLD

Authors: Sukumaran, M., Greger, I.H.

Description: High resolution structure of the GluA4 N-terminal domain (NTD)