4k72 - Revision history

OCA at 15:54, 20 September 2023

2023-09-20T15:54:33Z

←Older revision		Revision as of 15:54, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K72 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K72 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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [https://pdbe.org/4k72 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [https://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 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]] 1.9Å</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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [https://pdbe.org/4k72 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [https://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==

OCA at 11:42, 30 November 2022

2022-11-30T11:42:58Z

←Older revision		Revision as of 11:42, 30 November 2022
Line 3:		Line 3:
	<StructureSection load='4k72' size='340' side='right'caption='[[4k72]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4k72' size='340' side='right'caption='[[4k72]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=4K72 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K72 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k6y\|4k6y]], [[4k75\|4k75]], [[4k76\|4k76]], [[4k78\|4k78]], [[4jop\|4jop]], [[4jor\|4jor]]</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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [https://pdbe.org/4k72 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [https://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GOPC, CAL, FIG ([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~~://proteopedia.org/fgij/fg.htm?mol=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [~~http~~://pdbe.org/4k72 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Note=A chromosomal aberration involving GOPC is found in a glioblastoma multiforme sample. An intra-chromosomal deletion del(6)(q21q21) is responsible for the formation of GOPC-ROS1 chimeric protein which has a constitutive receptor tyrosine kinase activity.<ref>PMID:12661006</ref>	+	[https://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN] Note=A chromosomal aberration involving GOPC is found in a glioblastoma multiforme sample. An intra-chromosomal deletion del(6)(q21q21) is responsible for the formation of GOPC-ROS1 chimeric protein which has a constitutive receptor tyrosine kinase activity.<ref>PMID:12661006</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Plays a role in intracellular protein trafficking and degradation. May regulate CFTR chloride currents and acid-induced ASIC3 currents by modulating cell surface expression of both channels. May also regulate the intracellular trafficking of the ADR1B receptor. May play a role in autophagy. Overexpression results in CFTR intracellular retention and degradation in the lysosomes.<ref>PMID:11707463</ref> <ref>PMID:14570915</ref> <ref>PMID:15358775</ref>	+	[https://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN] Plays a role in intracellular protein trafficking and degradation. May regulate CFTR chloride currents and acid-induced ASIC3 currents by modulating cell surface expression of both channels. May also regulate the intracellular trafficking of the ADR1B receptor. May play a role in autophagy. Overexpression results in CFTR intracellular retention and degradation in the lysosomes.<ref>PMID:11707463</ref> <ref>PMID:14570915</ref> <ref>PMID:15358775</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Amacher~~, J F~~]]	+	[[Category: Amacher JF]]
-	[[Category: Madden~~, D R]]~~	+	[[Category: Madden DR]]
-	~~[[Category: Cal]]~~	+
-	~~[[Category: Cftr]]~~	+
-	~~[[Category: Cftr associated ligand]]~~	+
-	~~[[Category: Fig]]~~	+
-	~~[[Category: Pdz domain]]~~	+
-	~~[[Category: Pdz-peptide complex]]~~	+
-	~~[[Category: Peptide binding protein-protein binding complex]]~~	+
-	~~[[Category: Pist~~]]	+

OCA at 08:21, 21 October 2020

2020-10-21T08:21:40Z

←Older revision		Revision as of 08:21, 21 October 2020
Line 1:		Line 1:

	==CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)==		==CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)==
-	<StructureSection load='4k72' size='340' side='right' caption='[[4k72]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4k72' size='340' side='right'caption='[[4k72]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4K72 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=4K72 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k6y\|4k6y]], [[4k75\|4k75]], [[4k76\|4k76]], [[4k78\|4k78]], [[4jop\|4jop]], [[4jor\|4jor]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k6y\|4k6y]], [[4k75\|4k75]], [[4k76\|4k76]], [[4k78\|4k78]], [[4jop\|4jop]], [[4jor\|4jor]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GOPC, CAL, FIG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GOPC, CAL, FIG ([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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [http://pdbe.org/4k72 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [http://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [http://pdbe.org/4k72 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [http://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Amacher, J F]]		[[Category: Amacher, J F]]
	[[Category: Madden, D R]]		[[Category: Madden, D R]]

OCA at 21:15, 5 August 2016

2016-08-05T21:15:55Z

←Older revision		Revision as of 21:15, 5 August 2016
Line 1:		Line 1:
-	{{STRUCTURE_4k72\| PDB=4k72 \| SCENE= }}
-	===CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)===
-	{{ABSTRACT_PUBMED_24210758}}

-	==Disease==	+	==CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)==
		+	<StructureSection load='4k72' size='340' side='right' caption='[[4k72]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4k72]] is a 4 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=4K72 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K72 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k6y\|4k6y]], [[4k75\|4k75]], [[4k76\|4k76]], [[4k78\|4k78]], [[4jop\|4jop]], [[4jor\|4jor]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GOPC, CAL, FIG ([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=4k72 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k72 OCA], [http://pdbe.org/4k72 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k72 RCSB], [http://www.ebi.ac.uk/pdbsum/4k72 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k72 ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
	[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Note=A chromosomal aberration involving GOPC is found in a glioblastoma multiforme sample. An intra-chromosomal deletion del(6)(q21q21) is responsible for the formation of GOPC-ROS1 chimeric protein which has a constitutive receptor tyrosine kinase activity.<ref>PMID:12661006</ref>		[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Note=A chromosomal aberration involving GOPC is found in a glioblastoma multiforme sample. An intra-chromosomal deletion del(6)(q21q21) is responsible for the formation of GOPC-ROS1 chimeric protein which has a constitutive receptor tyrosine kinase activity.<ref>PMID:12661006</ref>
-		+	== Function ==
-	==Function==	+
	[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Plays a role in intracellular protein trafficking and degradation. May regulate CFTR chloride currents and acid-induced ASIC3 currents by modulating cell surface expression of both channels. May also regulate the intracellular trafficking of the ADR1B receptor. May play a role in autophagy. Overexpression results in CFTR intracellular retention and degradation in the lysosomes.<ref>PMID:11707463</ref> <ref>PMID:14570915</ref> <ref>PMID:15358775</ref>		[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Plays a role in intracellular protein trafficking and degradation. May regulate CFTR chloride currents and acid-induced ASIC3 currents by modulating cell surface expression of both channels. May also regulate the intracellular trafficking of the ADR1B receptor. May play a role in autophagy. Overexpression results in CFTR intracellular retention and degradation in the lysosomes.<ref>PMID:11707463</ref> <ref>PMID:14570915</ref> <ref>PMID:15358775</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	PDZ domain interactions are involved in signaling and trafficking pathways that coordinate crucial cellular processes. Alignment-based PDZ binding motifs identify the few most favorable residues at certain positions along the peptide backbone. However, sequences that bind the CAL (CFTR-associated ligand) PDZ domain reveal only a degenerate motif that overpredicts the true number of high-affinity interactors. Here, we combine extended peptide-array motif analysis with biochemical techniques to show that non-motif "modulator" residues influence CAL binding. The crystallographic structures of 13 CAL:peptide complexes reveal defined, but accommodating stereochemical environments at non-motif positions, which are reflected in modulator preferences uncovered by multisequence substitutional arrays. These preferences facilitate the identification of high-affinity CAL binding sequences and differentially affect CAL and NHERF PDZ binding. As a result, they also help determine the specificity of a PDZ domain network that regulates the trafficking of CFTR at the apical membrane.

-	~~==About this~~ Structure==	+	Stereochemical Preferences Modulate Affinity and Selectivity among Five PDZ Domains that Bind CFTR: Comparative Structural and Sequence Analyses.,Amacher JF, Cushing PR, Brooks L 3rd, Boisguerin P, Madden DR Structure. 2014 Jan 7;22(1):82-93. doi: 10.1016/j.str.2013.09.019. Epub 2013 Nov , 7. PMID:24210758<ref>PMID:24210758</ref>
-	~~[[4k72]] is a 4 chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.~~il/oca-bin/ocashort?id=4K72 OCA]~~.	+

-	~~==Reference==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<~~ref group~~="~~xtra~~"~~>PMID~~:~~024210758~~</~~ref~~><references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Amacher, J F.]]	+	<div class="pdbe-citations 4k72" style="background-color:#fffaf0;"></div>
-	[[Category: Madden, D R.]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Amacher, J F]]
		+	[[Category: Madden, D R]]
	[[Category: Cal]]		[[Category: Cal]]
	[[Category: Cftr]]		[[Category: Cftr]]

OCA at 06:59, 22 January 2014

2014-01-22T06:59:06Z

←Older revision		Revision as of 06:59, 22 January 2014
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4k72\| PDB=4k72 \| SCENE= }}
		+	===CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)===
		+	{{ABSTRACT_PUBMED_24210758}}

-	~~The entry 4k72~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Disease==
		+	[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Note=A chromosomal aberration involving GOPC is found in a glioblastoma multiforme sample. An intra-chromosomal deletion del(6)(q21q21) is responsible for the formation of GOPC-ROS1 chimeric protein which has a constitutive receptor tyrosine kinase activity.<ref>PMID:12661006</ref>

-	~~Authors~~: ~~Amacher, J~~.F.~~, Madden, D~~.R.	+	==Function==
		+	[[http://www.uniprot.org/uniprot/GOPC_HUMAN GOPC_HUMAN]] Plays a role in intracellular protein trafficking and degradation. May regulate CFTR chloride currents and acid-induced ASIC3 currents by modulating cell surface expression of both channels. May also regulate the intracellular trafficking of the ADR1B receptor. May play a role in autophagy. Overexpression results in CFTR intracellular retention and degradation in the lysosomes.<ref>PMID:11707463</ref> <ref>PMID:14570915</ref> <ref>PMID:15358775</ref>

-	~~Description~~: ~~CFTR Associated Ligand (CAL) PDZ~~ domain ~~bound to~~ peptide ~~iCAL36~~-~~VQD (ANSRVQDSII)~~	+	==About this Structure==
		+	[[4k72]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K72 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:024210758</ref><references group="xtra"/><references/>
		+	[[Category: Amacher, J F.]]
		+	[[Category: Madden, D R.]]
		+	[[Category: Cal]]
		+	[[Category: Cftr]]
		+	[[Category: Cftr associated ligand]]
		+	[[Category: Fig]]
		+	[[Category: Pdz domain]]
		+	[[Category: Pdz-peptide complex]]
		+	[[Category: Peptide binding protein-protein binding complex]]
		+	[[Category: Pist]]

OCA at 19:56, 7 August 2013

2013-08-07T19:56:58Z

←Older revision		Revision as of 19:56, 7 August 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4k72 is ON HOLD	+	The entry 4k72 is ON HOLD until Paper Publication

	Authors: Amacher, J.F., Madden, D.R.		Authors: Amacher, J.F., Madden, D.R.

	Description: CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)		Description: CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)

OCA: Protected "4k72" [edit=sysop:move=sysop]

2013-04-24T11:01:25Z

Protected "4k72" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:01, 24 April 2013

OCA: New page: '''Unreleased structure''' The entry 4k72 is ON HOLD Authors: Amacher, J.F., Madden, D.R. Description: CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)

2013-04-24T11:01:23Z

New page: '''Unreleased structure''' The entry 4k72 is ON HOLD Authors: Amacher, J.F., Madden, D.R. Description: CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)

New page

'''Unreleased structure'''

The entry 4k72 is ON HOLD

Authors: Amacher, J.F., Madden, D.R.

Description: CFTR Associated Ligand (CAL) PDZ domain bound to peptide iCAL36-VQD (ANSRVQDSII)