4f3j - Revision history

OCA at 11:09, 1 March 2024

OCA — Fri, 01 Mar 2024 11:09:26 GMT

←Older revision		Revision as of 11:09, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4f3j]] is a 1 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=4F3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F3J FirstGlance]. <br>		<table><tr><td colspan='2'>[[4f3j]] is a 1 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=4F3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F3J 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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [https://pdbe.org/4f3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [https://www.ebi.ac.uk/pdbsum/4f3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f3j 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]] 1.337Å</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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [https://pdbe.org/4f3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [https://www.ebi.ac.uk/pdbsum/4f3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f3j ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 10:		Line 11:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN]		[https://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Autosomal dominant late-onset retinal macular degeneration (L-ORMD) is caused by a single S163R mutation in the C1q and tumor necrosis factor-related protein 5 (C1QTNF5) gene. The C1QTNF5 gene encodes a secreted and membrane-associated protein involved in adhesion of retinal pigmented epithelial cells (RPE) to Bruch's membrane. The crystal structure of the trimeric globular domain of human C1QTNF5 at 1.34A resolution reveals unique features of this novel C1q family member. It lacks a Ca(2+)-binding site, displays a remarkable non-uniform distribution of surface electrostatic potentials and possesses a unique sequence (F(181)F(182)G(183)G(184)W(185)P(186)) that forms a hydrophobic plateau surrounded by Lys and Arg residues with a solvent cavity underneath. S(163) forms a hydrogen bond with F(182) in a hydrophobic area extending to the hydrophobic plateau. The pathogenic mutation S163R disrupts this hydrogen bonding and positively charges these hydrophobic areas. Thus, our analysis provides insights into the structural basis of the L-ORMD disease mechanism.
-
-	Crystal structure of the globular domain of C1QTNF5: Implications for late-onset retinal macular degeneration.,Tu X, Palczewski K J Struct Biol. 2012 Aug 7. PMID:22892318<ref>PMID:22892318</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4f3j" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 04:31, 7 October 2022

OCA — Fri, 07 Oct 2022 04:31:55 GMT

←Older revision		Revision as of 04:31, 7 October 2022
Line 1:		Line 1:

	==Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration==		==Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration==
-	<StructureSection load='4f3j' size='340' side='right' caption='[[4f3j]], [[Resolution\|resolution]] 1.34Å' scene=''>	+	<StructureSection load='4f3j' size='340' side='right'caption='[[4f3j]], [[Resolution\|resolution]] 1.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4f3j]] is a 1 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=4F3J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4F3J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4f3j]] is a 1 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=4F3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F3J FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C1QTNF5, CTRP5, UNQ303/PRO344 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [https://pdbe.org/4f3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [https://www.ebi.ac.uk/pdbsum/4f3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f3j 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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [~~http~~://pdbe.org/4f3j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4f3j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4f3j ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN]] Late-onset retinal degeneration. The disease is caused by mutations affecting the gene represented in this entry.	+	[https://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN] Late-onset retinal degeneration. The disease is caused by mutations affecting the gene represented in this entry.
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Palczewski, K~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Tu, X~~]]	+	[[Category: Palczewski K]]
-	[[Category: ~~10-strand jelly-roll fold]]~~	+	[[Category: Tu X]]
-	~~[[Category: Age-related macular degeneration]]~~	+
-	~~[[Category: Amd]]~~	+
-	~~[[Category: C1qtnf5]]~~	+
-	~~[[Category: Ciliary body]]~~	+
-	~~[[Category: Ctrp5]]~~	+
-	~~[[Category: Drusen]]~~	+
-	~~[[Category: L-ord]]~~	+
-	~~[[Category: L-ormd]]~~	+
-	~~[[Category: Late-onset retinal macular degeneration]]~~	+
-	~~[[Category: Mfrp]]~~	+
-	~~[[Category: Retinal deposite]]~~	+
-	~~[[Category: Rpe]]~~	+
-	~~[[Category: S163r]]~~	+
-	~~[[Category: Ser163arg]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 19:49, 15 December 2016

OCA — Thu, 15 Dec 2016 19:49:42 GMT

←Older revision		Revision as of 19:49, 15 December 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration==		==Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration==
	<StructureSection load='4f3j' size='340' side='right' caption='[[4f3j]], [[Resolution\|resolution]] 1.34Å' scene=''>		<StructureSection load='4f3j' size='340' side='right' caption='[[4f3j]], [[Resolution\|resolution]] 1.34Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4f3j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F3J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4F3J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4f3j]] is a 1 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=4F3J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4F3J FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C1QTNF5, CTRP5, UNQ303/PRO344 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C1QTNF5, CTRP5, UNQ303/PRO344 ([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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [http://www.ebi.ac.uk/pdbsum/4f3j 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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [http://pdbe.org/4f3j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [http://www.ebi.ac.uk/pdbsum/4f3j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4f3j ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/C1QT5_HUMAN C1QT5_HUMAN]] Late-onset retinal degeneration. The disease is caused by mutations affecting the gene represented in this entry.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 17:
	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 4f3j" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Palczewski, K]]		[[Category: Palczewski, K]]
	[[Category: Tu, X]]		[[Category: Tu, X]]

OCA at 17:13, 9 December 2014

OCA — Tue, 09 Dec 2014 17:13:02 GMT

←Older revision		Revision as of 17:13, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4f3j.~~png~~\|~~left\|200px~~]]	+	==Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration==
		+	<StructureSection load='4f3j' size='340' side='right' caption='[[4f3j]], [[Resolution\|resolution]] 1.34Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4f3j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F3J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4F3J FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C1QTNF5, CTRP5, UNQ303/PRO344 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=4f3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f3j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4f3j RCSB], [http://www.ebi.ac.uk/pdbsum/4f3j PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Autosomal dominant late-onset retinal macular degeneration (L-ORMD) is caused by a single S163R mutation in the C1q and tumor necrosis factor-related protein 5 (C1QTNF5) gene. The C1QTNF5 gene encodes a secreted and membrane-associated protein involved in adhesion of retinal pigmented epithelial cells (RPE) to Bruch's membrane. The crystal structure of the trimeric globular domain of human C1QTNF5 at 1.34A resolution reveals unique features of this novel C1q family member. It lacks a Ca(2+)-binding site, displays a remarkable non-uniform distribution of surface electrostatic potentials and possesses a unique sequence (F(181)F(182)G(183)G(184)W(185)P(186)) that forms a hydrophobic plateau surrounded by Lys and Arg residues with a solvent cavity underneath. S(163) forms a hydrogen bond with F(182) in a hydrophobic area extending to the hydrophobic plateau. The pathogenic mutation S163R disrupts this hydrogen bonding and positively charges these hydrophobic areas. Thus, our analysis provides insights into the structural basis of the L-ORMD disease mechanism.

-	~~{{STRUCTURE_4f3j\| PDB=4f3j \| SCENE= }}~~	+	Crystal structure of the globular domain of C1QTNF5: Implications for late-onset retinal macular degeneration.,Tu X, Palczewski K J Struct Biol. 2012 Aug 7. PMID:22892318<ref>PMID:22892318</ref>

-	~~===Crystal Structure~~ of ~~Trimeric gC1q Domain~~ of ~~Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22892318}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4f3j]] is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F3J OCA].~~	+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Palczewski, K.]]	+	[[Category: Palczewski, K]]
-	[[Category: Tu, X.]]	+	[[Category: Tu, X]]
	[[Category: 10-strand jelly-roll fold]]		[[Category: 10-strand jelly-roll fold]]
	[[Category: Age-related macular degeneration]]		[[Category: Age-related macular degeneration]]

OCA at 21:32, 12 December 2012

OCA — Wed, 12 Dec 2012 21:32:37 GMT

←Older revision		Revision as of 21:32, 12 December 2012
Line 1:		Line 1:
-	[[Image:4f3j.~~jpg~~\|left\|200px]]	+	[[Image:4f3j.png\|left\|200px]]

	{{STRUCTURE_4f3j\| PDB=4f3j \| SCENE= }}		{{STRUCTURE_4f3j\| PDB=4f3j \| SCENE= }}
Line 5:		Line 5:
	===Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration===		===Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration===

		+	{{ABSTRACT_PUBMED_22892318}}

	==About this Structure==		==About this Structure==

OCA at 13:43, 8 November 2012

OCA — Thu, 08 Nov 2012 13:43:53 GMT

←Older revision		Revision as of 13:43, 8 November 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4f3j.jpg\|left\|200px]]

-	~~The entry~~ 4f3j ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4f3j\| PDB=4f3j \| SCENE= }}

-	~~Authors: Tu, X., Palczewski, K.~~	+	===Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration===

-	~~Description: Crystal~~ Structure ~~of Trimeric gC1q Domain of Human C1QTNF5 associated~~ with Late-onset Retinal ~~Macular Degeneration~~	+
		+	==About this Structure==
		+	[[4f3j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F3J OCA].
		+	[[Category: Homo sapiens]]
		+	[[Category: Palczewski, K.]]
		+	[[Category: Tu, X.]]
		+	[[Category: 10-strand jelly-roll fold]]
		+	[[Category: Age-related macular degeneration]]
		+	[[Category: Amd]]
		+	[[Category: C1qtnf5]]
		+	[[Category: Ciliary body]]
		+	[[Category: Ctrp5]]
		+	[[Category: Drusen]]
		+	[[Category: L-ord]]
		+	[[Category: L-ormd]]
		+	[[Category: Late-onset retinal macular degeneration]]
		+	[[Category: Mfrp]]
		+	[[Category: Retinal deposite]]
		+	[[Category: Rpe]]
		+	[[Category: S163r]]
		+	[[Category: Ser163arg]]
		+	[[Category: Signaling protein]]

OCA at 05:21, 27 June 2012

OCA — Wed, 27 Jun 2012 05:21:38 GMT

←Older revision		Revision as of 05:21, 27 June 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4f3j is ON HOLD	+	The entry 4f3j is ON HOLD until Paper Publication

	Authors: Tu, X., Palczewski, K.		Authors: Tu, X., Palczewski, K.

	Description: Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration		Description: Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration

OCA: Protected "4f3j" [edit=sysop:move=sysop]

OCA — Wed, 16 May 2012 08:55:27 GMT

Protected "4f3j" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:55, 16 May 2012

OCA: New page: '''Unreleased structure''' The entry 4f3j is ON HOLD Authors: Tu, X., Palczewski, K. Description: Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset ...

OCA — Wed, 16 May 2012 08:55:26 GMT

New page: '''Unreleased structure''' The entry 4f3j is ON HOLD Authors: Tu, X., Palczewski, K. Description: Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset ...

New page

'''Unreleased structure'''

The entry 4f3j is ON HOLD

Authors: Tu, X., Palczewski, K.

Description: Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration