4q2o - Revision history

OCA at 17:26, 20 September 2023

OCA — Wed, 20 Sep 2023 17:26:39 GMT

←Older revision		Revision as of 17:26, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
-	</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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [https://pdbe.org/4q2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [https://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></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]] 2.1Å</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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [https://pdbe.org/4q2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [https://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 07:41, 8 February 2023

OCA — Wed, 08 Feb 2023 07:41:15 GMT

←Older revision		Revision as of 07:41, 8 February 2023
Line 3:		Line 3:
	<StructureSection load='4q2o' size='340' side='right'caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4q2o' size='340' side='right'caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>~~	+	</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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [https://pdbe.org/4q2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [https://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDLIM4, RIL ([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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [~~http~~://pdbe.org/4q2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PDLI4_HUMAN PDLI4_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Appleton~~, B A~~]]	+	[[Category: Appleton BA]]
-	[[Category: Wiesmann, C]]	+	[[Category: Wiesmann C]]
-	~~[[Category: Pdz]]~~	+
-	~~[[Category: Protein binding~~]]	+

OCA at 08:53, 24 April 2019

OCA — Wed, 24 Apr 2019 08:53:51 GMT

←Older revision		Revision as of 08:53, 24 April 2019
Line 1:		Line 1:

	==PDLIM4 PDZ in Complex with a Phage-Derived Peptide==		==PDLIM4 PDZ in Complex with a Phage-Derived Peptide==
-	<StructureSection load='4q2o' size='340' side='right' caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='4q2o' size='340' side='right'caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDLIM4, RIL ([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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://pdbe.org/4q2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o 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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://pdbe.org/4q2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></td></tr>
	</table>		</table>
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Appleton, B A]]		[[Category: Appleton, B A]]
	[[Category: Wiesmann, C]]		[[Category: Wiesmann, C]]
	[[Category: Pdz]]		[[Category: Pdz]]
	[[Category: Protein binding]]		[[Category: Protein binding]]

OCA at 10:53, 11 August 2016

OCA — Thu, 11 Aug 2016 10:53:50 GMT

←Older revision		Revision as of 10:53, 11 August 2016
Line 1:		Line 1:
		+
	==PDLIM4 PDZ in Complex with a Phage-Derived Peptide==		==PDLIM4 PDZ in Complex with a Phage-Derived Peptide==
	<StructureSection load='4q2o' size='340' side='right' caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4q2o' size='340' side='right' caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o 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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://pdbe.org/4q2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4q2o ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	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 4q2o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[PDZ and LIM domain protein\|PDZ and LIM domain protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:50, 26 November 2014

OCA — Wed, 26 Nov 2014 05:50:47 GMT

←Older revision		Revision as of 05:50, 26 November 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o 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=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Appleton, B A.]]	+	[[Category: Appleton, B A]]
-	[[Category: Wiesmann, C.]]	+	[[Category: Wiesmann, C]]
	[[Category: Pdz]]		[[Category: Pdz]]
	[[Category: Protein binding]]		[[Category: Protein binding]]

OCA at 09:49, 10 September 2014

OCA — Wed, 10 Sep 2014 09:49:36 GMT

←Older revision		Revision as of 09:49, 10 September 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==PDLIM4 PDZ in Complex with a Phage-Derived Peptide==
		+	<StructureSection load='4q2o' size='340' side='right' caption='[[4q2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4q2o]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q2O FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4q2n\|4q2n]], [[4q2p\|4q2p]], [[4q2q\|4q2q]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4q2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4q2o RCSB], [http://www.ebi.ac.uk/pdbsum/4q2o PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	PDZ (PSD-95/Discs-large/ZO1) domains are interaction modules that typically bind to specific C-terminal sequences of partner proteins and assemble signaling complexes in multicellular organisms. We have analyzed the existing database of PDZ domain structures in the context of a specificity tree based on binding specificities defined by peptide-phage binding selections. We have identified 16 structures of PDZ domains in complex with high-affinity ligands and have elucidated four additional structures to assemble a structural database that covers most of the branches of the PDZ specificity tree. A detailed comparison of the structures reveals features that are responsible for the diverse specificities across the PDZ domain family. Specificity differences can be explained by differences in PDZ residues that are in contact with the peptide ligands, but these contacts involve both side-chain and main-chain interactions. Most PDZ domains bind peptides in a canonical conformation in which the ligand main chain adopts an extended beta-strand conformation by interacting in an antiparallel fashion with a PDZ beta-strand. However, a subset of PDZ domains bind peptides with a bent main-chain conformation and the specificities of these non-canonical domains could not be explained based on canonical structures. Our analysis provides a structural portrait of the PDZ domain family, which serves as a guide in understanding the structural basis for the diverse specificities across the family.

-	~~The entry 4q2o is ON HOLD until Paper Publication~~	+	A Structural Portrait of the PDZ Domain Family.,Ernst A, Appleton BA, Ivarsson Y, Zhang Y, Gfeller D, Wiesmann C, Sidhu SS J Mol Biol. 2014 Aug 23. pii: S0022-2836(14)00431-8. doi:, 10.1016/j.jmb.2014.08.012. PMID:25158098<ref>PMID:25158098</ref>

-	~~Authors~~: Appleton, B.A., Wiesmann, C.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~PDLIM4 PDZ in Complex with a Phage-Derived Peptide~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Appleton, B A.]]
		+	[[Category: Wiesmann, C.]]
		+	[[Category: Pdz]]
		+	[[Category: Protein binding]]

OCA at 06:39, 30 April 2014

OCA — Wed, 30 Apr 2014 06:39:11 GMT

←Older revision		Revision as of 06:39, 30 April 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4q2o is ON HOLD	+	The entry 4q2o is ON HOLD until Paper Publication

	Authors: Appleton, B.A., Wiesmann, C.		Authors: Appleton, B.A., Wiesmann, C.

	Description: PDLIM4 PDZ in Complex with a Phage-Derived Peptide		Description: PDLIM4 PDZ in Complex with a Phage-Derived Peptide

OCA: Protected "4q2o" [edit=sysop:move=sysop]

OCA — Wed, 16 Apr 2014 09:11:27 GMT

Protected "4q2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:11, 16 April 2014

OCA: New page: '''Unreleased structure''' The entry 4q2o is ON HOLD Authors: Appleton, B.A., Wiesmann, C. Description: PDLIM4 PDZ in Complex with a Phage-Derived Peptide

OCA — Wed, 16 Apr 2014 09:11:25 GMT

New page: '''Unreleased structure''' The entry 4q2o is ON HOLD Authors: Appleton, B.A., Wiesmann, C. Description: PDLIM4 PDZ in Complex with a Phage-Derived Peptide

New page

'''Unreleased structure'''

The entry 4q2o is ON HOLD

Authors: Appleton, B.A., Wiesmann, C.

Description: PDLIM4 PDZ in Complex with a Phage-Derived Peptide