6qjj - Revision history

OCA at 12:02, 24 January 2024

2024-01-24T12:02:11Z

←Older revision		Revision as of 12:02, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6qjj' size='340' side='right'caption='[[6qjj]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6qjj' size='340' side='right'caption='[[6qjj]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qjj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5oig 5oig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QJJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qjj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5oig 5oig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QJJ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.7Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5oig\|5oig]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">DLG4, PSD95 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=6qjj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjj OCA], [https://pdbe.org/6qjj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qjj RCSB], [https://www.ebi.ac.uk/pdbsum/6qjj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjj 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=6qjj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjj OCA], [~~http~~://pdbe.org/6qjj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qjj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qjj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjj ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DLG4_HUMAN DLG4_HUMAN]] Interacts with the cytoplasmic tail of NMDA receptor subunits and shaker-type potassium channels. Required for synaptic plasticity associated with NMDA receptor signaling. Overexpression or depletion of DLG4 changes the ratio of excitatory to inhibitory synapses in hippocampal neurons. May reduce the amplitude of ASIC3 acid-evoked currents by retaining the channel intracellularly. May regulate the intracellular trafficking of ADR1B (By similarity).	+	[https://www.uniprot.org/uniprot/DLG4_HUMAN DLG4_HUMAN] Interacts with the cytoplasmic tail of NMDA receptor subunits and shaker-type potassium channels. Required for synaptic plasticity associated with NMDA receptor signaling. Overexpression or depletion of DLG4 changes the ratio of excitatory to inhibitory synapses in hippocampal neurons. May reduce the amplitude of ASIC3 acid-evoked currents by retaining the channel intracellularly. May regulate the intracellular trafficking of ADR1B (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6qjj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6qjj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Postsynaptic density protein 3D structures\|Postsynaptic density protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Camara-Artigas, A]]	+	[[Category: Camara-Artigas A]]
-	~~[[Category: Pdz domain]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 08:26, 24 April 2019

2019-04-24T08:26:42Z

←Older revision		Revision as of 08:26, 24 April 2019
Line 3:		Line 3:
	<StructureSection load='6qjj' size='340' side='right'caption='[[6qjj]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6qjj' size='340' side='right'caption='[[6qjj]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qjj]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5oig 5oig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QJJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qjj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5oig 5oig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QJJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5oig\|5oig]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5oig\|5oig]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DLG4, PSD95 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=6qjj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjj OCA], [http://pdbe.org/6qjj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qjj RCSB], [http://www.ebi.ac.uk/pdbsum/6qjj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjj 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=6qjj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjj OCA], [http://pdbe.org/6qjj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qjj RCSB], [http://www.ebi.ac.uk/pdbsum/6qjj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/DLG4_HUMAN DLG4_HUMAN]] Interacts with the cytoplasmic tail of NMDA receptor subunits and shaker-type potassium channels. Required for synaptic plasticity associated with NMDA receptor signaling. Overexpression or depletion of DLG4 changes the ratio of excitatory to inhibitory synapses in hippocampal neurons. May reduce the amplitude of ASIC3 acid-evoked currents by retaining the channel intracellularly. May regulate the intracellular trafficking of ADR1B (By similarity).		[[http://www.uniprot.org/uniprot/DLG4_HUMAN DLG4_HUMAN]] Interacts with the cytoplasmic tail of NMDA receptor subunits and shaker-type potassium channels. Required for synaptic plasticity associated with NMDA receptor signaling. Overexpression or depletion of DLG4 changes the ratio of excitatory to inhibitory synapses in hippocampal neurons. May reduce the amplitude of ASIC3 acid-evoked currents by retaining the channel intracellularly. May regulate the intracellular trafficking of ADR1B (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	PDZ domains are protein-protein recognition modules that interact with other proteins through short sequences at the carboxyl terminus. These domains are structurally characterized by a conserved fold composed of six beta-strands and two alpha-helices. The third PDZ domain of the neuronal postsynaptic density protein 95 has an additional alpha-helix (alpha3), the role of which is not well known. In previous structures, a succinimide was identified in the beta2-beta3 loop instead of Asp332. The presence of this modified residue results in conformational changes in alpha3. In this work, crystallographic structures of the following have been solved: a truncated form of the third PDZ domain of the neuronal postsynaptic density protein 95 from which alpha3 has been removed, D332P and D332G variants of the protein, and a new crystal form of this domain showing the binding of Asp332 to the carboxylate-binding site of a symmetry-related molecule. Crystals of the wild type and variants were obtained in different space groups, which reflects the conformational plasticity of the domain. Indeed, the overall analysis of these structures suggests that the conformation of the beta2-beta3 loop is correlated with the fold acquired by alpha3. The alternate conformation of the beta2-beta3 loop affects the electrostatics of the carboxylate-binding site and might modulate the binding of different PDZ-binding motifs.
		+
		+	Conformational changes in the third PDZ domain of the neuronal postsynaptic density protein 95.,Camara-Artigas A, Murciano-Calles J, Martinez JC Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):381-391. doi:, 10.1107/S2059798319001980. Epub 2019 Mar 28. PMID:30988255<ref>PMID:30988255</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qjj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Camara-Artigas, A]]		[[Category: Camara-Artigas, A]]
	[[Category: Pdz domain]]		[[Category: Pdz domain]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]

OCA at 05:44, 17 April 2019

2019-04-17T05:44:20Z

←Older revision		Revision as of 05:44, 17 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6qjj is ON HOLD until Paper Publication~~	+	==Crystal Structure of the third PDZ domain of PSD-95 protein: space group P3221==
-		+	<StructureSection load='6qjj' size='340' side='right'caption='[[6qjj]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors: Camara-Artigas, A.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6qjj]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5oig 5oig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QJJ FirstGlance]. <br>
-	~~Description:~~ Crystal Structure of the third PDZ domain of PSD-95 protein: space group P3221	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5oig\|5oig]]</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=6qjj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjj OCA], [http://pdbe.org/6qjj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qjj RCSB], [http://www.ebi.ac.uk/pdbsum/6qjj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjj ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DLG4_HUMAN DLG4_HUMAN]] Interacts with the cytoplasmic tail of NMDA receptor subunits and shaker-type potassium channels. Required for synaptic plasticity associated with NMDA receptor signaling. Overexpression or depletion of DLG4 changes the ratio of excitatory to inhibitory synapses in hippocampal neurons. May reduce the amplitude of ASIC3 acid-evoked currents by retaining the channel intracellularly. May regulate the intracellular trafficking of ADR1B (By similarity).
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Camara-Artigas, A]]		[[Category: Camara-Artigas, A]]
		+	[[Category: Pdz domain]]
		+	[[Category: Signaling protein]]

OCA at 07:56, 13 February 2019

2019-02-13T07:56:56Z

←Older revision		Revision as of 07:56, 13 February 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6qjj is ON HOLD	+	The entry 6qjj is ON HOLD until Paper Publication

	Authors: Camara-Artigas, A.		Authors: Camara-Artigas, A.

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

2019-01-30T07:03:48Z

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

←Older revision

Revision as of 07:03, 30 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qjj is ON HOLD Authors: Camara-Artigas, A. Description: Crystal Structure of the third PDZ domain of PSD-95 protein: space group P3221 [[Category:...

2019-01-30T07:03:47Z

New page: '''Unreleased structure''' The entry 6qjj is ON HOLD Authors: Camara-Artigas, A. Description: Crystal Structure of the third PDZ domain of PSD-95 protein: space group P3221 [[Category:...

New page

'''Unreleased structure'''

The entry 6qjj is ON HOLD

Authors: Camara-Artigas, A.

Description: Crystal Structure of the third PDZ domain of PSD-95 protein: space group P3221
[[Category: Unreleased Structures]]
[[Category: Camara-Artigas, A]]