5hed - Revision history

OCA at 07:33, 9 August 2023

2023-08-09T07:33:18Z

←Older revision		Revision as of 07:33, 9 August 2023
Line 3:		Line 3:
	<StructureSection load='5hed' size='340' side='right'caption='[[5hed]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='5hed' size='340' side='right'caption='[[5hed]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hed]] is a 2 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=5HED OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5HED FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hed]] is a 2 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=5HED OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HED FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[1be9\|1be9]], [[5hdy\|5hdy]], [[5heb\|5heb]], [[5het\|5het]], [[5hey\|5hey]], [[5hf1\|5hf1]], [[5hf4\|5hf4]], [[5hfb\|5hfb]], [[5hfc\|5hfc]], [[5hfd\|5hfd]], [[5hfe\|5hfe]], [[5hff\|5hff]]</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~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">Dlg4, Dlgh4, Psd95 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5hed FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hed OCA], [https://pdbe.org/5hed PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hed RCSB], [https://www.ebi.ac.uk/pdbsum/5hed PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hed ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5hed FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hed OCA], [~~http~~://pdbe.org/5hed PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5hed RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5hed PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5hed ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DLG4_RAT DLG4_RAT]] 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.<ref>PMID:15317815</ref> <ref>PMID:15358863</ref> ~~[[http://www.uniprot.org/uniprot/CRIPT_RAT CRIPT_RAT]] Involved in the cytoskeletal anchoring of DLG4 in excitatory synapses.<ref>PMID:10570482</ref> <ref>PMID:9581762</ref>~~	+	[https://www.uniprot.org/uniprot/DLG4_RAT DLG4_RAT] 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.<ref>PMID:15317815</ref> <ref>PMID:15358863</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5hed" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5hed" 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: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Raman, A S~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Ranganathan, R~~]]	+	[[Category: Raman AS]]
-	[[Category: ~~White, K I~~]]	+	[[Category: Ranganathan R]]
-	[[Category: ~~Adhesion]]~~	+	[[Category: White KI]]
-	~~[[Category: Dhr]]~~	+
-	~~[[Category: Glgf]]~~	+
-	~~[[Category: Pdz]]~~	+
-	~~[[Category: Peptide binding protein]]~~	+
-	~~[[Category: Peptide-binding domain]]~~	+
-	~~[[Category: Synapse]]~~	+
-	~~[[Category: Synaptic density~~]]	+

OCA at 07:02, 20 May 2020

2020-05-20T07:02:14Z

←Older revision		Revision as of 07:02, 20 May 2020
Line 1:		Line 1:

	==The third PDZ domain from the synaptic protein PSD-95 in complex with a mutant C-terminal peptide derived from CRIPT (T-2F)==		==The third PDZ domain from the synaptic protein PSD-95 in complex with a mutant C-terminal peptide derived from CRIPT (T-2F)==
-	<StructureSection load='5hed' size='340' side='right' caption='[[5hed]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='5hed' size='340' side='right'caption='[[5hed]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hed]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HED OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5HED FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hed]] is a 2 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=5HED OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5HED FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1be9\|1be9]], [[5hdy\|5hdy]], [[5heb\|5heb]], [[5het\|5het]], [[5hey\|5hey]], [[5hf1\|5hf1]], [[5hf4\|5hf4]], [[5hfb\|5hfb]], [[5hfc\|5hfc]], [[5hfd\|5hfd]], [[5hfe\|5hfe]], [[5hff\|5hff]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1be9\|1be9]], [[5hdy\|5hdy]], [[5heb\|5heb]], [[5het\|5het]], [[5hey\|5hey]], [[5hf1\|5hf1]], [[5hf4\|5hf4]], [[5hfb\|5hfb]], [[5hfc\|5hfc]], [[5hfd\|5hfd]], [[5hfe\|5hfe]], [[5hff\|5hff]]</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=5hed FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hed OCA], [http://pdbe.org/5hed PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hed RCSB], [http://www.ebi.ac.uk/pdbsum/5hed PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hed ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dlg4, Dlgh4, Psd95 ([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://proteopedia.org/fgij/fg.htm?mol=5hed FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hed OCA], [http://pdbe.org/5hed PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hed RCSB], [http://www.ebi.ac.uk/pdbsum/5hed PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hed ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Raman, A S]]		[[Category: Raman, A S]]
	[[Category: Ranganathan, R]]		[[Category: Ranganathan, R]]

OCA at 03:25, 10 December 2016

2016-12-10T03:25:50Z

←Older revision		Revision as of 03:25, 10 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 5hed is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==The third PDZ domain from the synaptic protein PSD-95 in complex with a mutant C-terminal peptide derived from CRIPT (T-2F)==
		+	<StructureSection load='5hed' size='340' side='right' caption='[[5hed]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5hed]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HED OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HED FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1be9\|1be9]], [[5hdy\|5hdy]], [[5heb\|5heb]], [[5het\|5het]], [[5hey\|5hey]], [[5hf1\|5hf1]], [[5hf4\|5hf4]], [[5hfb\|5hfb]], [[5hfc\|5hfc]], [[5hfd\|5hfd]], [[5hfe\|5hfe]], [[5hff\|5hff]]</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=5hed FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hed OCA], [http://pdbe.org/5hed PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hed RCSB], [http://www.ebi.ac.uk/pdbsum/5hed PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hed ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DLG4_RAT DLG4_RAT]] 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.<ref>PMID:15317815</ref> <ref>PMID:15358863</ref> [[http://www.uniprot.org/uniprot/CRIPT_RAT CRIPT_RAT]] Involved in the cytoskeletal anchoring of DLG4 in excitatory synapses.<ref>PMID:10570482</ref> <ref>PMID:9581762</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Proteins display the capacity for adaptation to new functions, a property critical for evolvability. But what structural principles underlie the capacity for adaptation? Here, we show that adaptation to a physiologically distinct class of ligand specificity in a PSD95, DLG1, ZO-1 (PDZ) domain preferentially occurs through class-bridging intermediate mutations located distant from the ligand-binding site. These mutations provide a functional link between ligand classes and demonstrate the principle of "conditional neutrality" in mediating evolutionary adaptation. Structures show that class-bridging mutations work allosterically to open up conformational plasticity at the active site, permitting novel functions while retaining existing function. More generally, the class-bridging phenotype arises from mutations in an evolutionarily conserved network of coevolving amino acids in the PDZ family (the sector) that connects the active site to distant surface sites. These findings introduce the concept that allostery in proteins could have its origins not in protein function but in the capacity to adapt.

-	~~Authors~~:	+	Origins of Allostery and Evolvability in Proteins: A Case Study.,Raman AS, White KI, Ranganathan R Cell. 2016 Jul 14;166(2):468-80. doi: 10.1016/j.cell.2016.05.047. Epub 2016 Jun, 16. PMID:27321669<ref>PMID:27321669</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5hed" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Raman, A S]]
		+	[[Category: Ranganathan, R]]
		+	[[Category: White, K I]]
		+	[[Category: Adhesion]]
		+	[[Category: Dhr]]
		+	[[Category: Glgf]]
		+	[[Category: Pdz]]
		+	[[Category: Peptide binding protein]]
		+	[[Category: Peptide-binding domain]]
		+	[[Category: Synapse]]
		+	[[Category: Synaptic density]]

OCA at 13:34, 15 May 2016

2016-05-15T13:34:10Z

←Older revision		Revision as of 13:34, 15 May 2016
Line 3:		Line 3:
	The entry 5hed is ON HOLD until Paper Publication		The entry 5hed is ON HOLD until Paper Publication

-	Authors: ~~White, K.I., Raman, A.S., Ranganathan, R.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Ranganathan, R]]
-	[[Category: Raman, A.S]]
-	[[Category: White, K.I]]

OCA at 00:35, 28 January 2016

2016-01-28T00:35:38Z

←Older revision		Revision as of 00:35, 28 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5hed is ON HOLD	+	The entry 5hed is ON HOLD until Paper Publication

	Authors: White, K.I., Raman, A.S., Ranganathan, R.		Authors: White, K.I., Raman, A.S., Ranganathan, R.

OCA: Protected "5hed" [edit=sysop:move=sysop]

2016-01-13T18:55:38Z

Protected "5hed" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:55, 13 January 2016

OCA: New page: '''Unreleased structure''' The entry 5hed is ON HOLD Authors: White, K.I., Raman, A.S., Ranganathan, R. Description: Category: Unreleased Structures Category: Ranganathan, R [...

2016-01-13T18:55:37Z

New page: '''Unreleased structure''' The entry 5hed is ON HOLD Authors: White, K.I., Raman, A.S., Ranganathan, R. Description: Category: Unreleased Structures Category: Ranganathan, R [...

New page

'''Unreleased structure'''

The entry 5hed is ON HOLD

Authors: White, K.I., Raman, A.S., Ranganathan, R.

Description:
[[Category: Unreleased Structures]]
[[Category: Ranganathan, R]]
[[Category: Raman, A.S]]
[[Category: White, K.I]]