5ew6 - Revision history

OCA at 08:28, 12 July 2023

2023-07-12T08:28:27Z

←Older revision		Revision as of 08:28, 12 July 2023
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	<StructureSection load='5ew6' size='340' side='right'caption='[[5ew6]], [[Resolution\|resolution]] 2.29Å' scene=''>		<StructureSection load='5ew6' size='340' side='right'caption='[[5ew6]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ew6]] 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=5EW6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EW6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ew6]] 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=5EW6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EW6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.29Å</td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[5e4k\|5e4k]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900017:triacetyl-beta-chitotriose'>PRD_900017</scene></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">MRC2, CLEC13E, ENDO180, KIAA0709, UPARAP ([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=5ew6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ew6 OCA], [https://pdbe.org/5ew6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ew6 RCSB], [https://www.ebi.ac.uk/pdbsum/5ew6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ew6 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=5ew6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ew6 OCA], [~~http~~://pdbe.org/5ew6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ew6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ew6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ew6 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MRC2_HUMAN MRC2_HUMAN]] May play a role as endocytotic lectin receptor displaying calcium-dependent lectin activity. Internalizes glycosylated ligands from the extracellular space for release in an endosomal compartment via clathrin-mediated endocytosis. May be involved in plasminogen activation system controlling the extracellular level of PLAUR/PLAU, and thus may regulate protease activity at the cell surface. May contribute to cellular uptake, remodeling and degradation of extracellular collagen matrices. May play a role during cancer progression as well as in other chronic tissue destructive diseases acting on collagen turnover. May participate in remodeling of extracellular matrix cooperating with the matrix metalloproteinases (MMPs).<ref>PMID:10683150</ref> <ref>PMID:12972549</ref>	+	[https://www.uniprot.org/uniprot/MRC2_HUMAN MRC2_HUMAN] May play a role as endocytotic lectin receptor displaying calcium-dependent lectin activity. Internalizes glycosylated ligands from the extracellular space for release in an endosomal compartment via clathrin-mediated endocytosis. May be involved in plasminogen activation system controlling the extracellular level of PLAUR/PLAU, and thus may regulate protease activity at the cell surface. May contribute to cellular uptake, remodeling and degradation of extracellular collagen matrices. May play a role during cancer progression as well as in other chronic tissue destructive diseases acting on collagen turnover. May participate in remodeling of extracellular matrix cooperating with the matrix metalloproteinases (MMPs).<ref>PMID:10683150</ref> <ref>PMID:12972549</ref>
	<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: Huang, M]]	+	[[Category: Huang M]]
-	[[Category: Yuan, C]]	+	[[Category: Yuan C]]
-	~~[[Category: Endocytic collagen receptor]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 07:47, 29 April 2020

2020-04-29T07:47:15Z

←Older revision		Revision as of 07:47, 29 April 2020
Line 1:		Line 1:

	==Structure of ligand binding region of uPARAP at pH 7.4 without calcium==		==Structure of ligand binding region of uPARAP at pH 7.4 without calcium==
-	<StructureSection load='5ew6' size='340' side='right' caption='[[5ew6]], [[Resolution\|resolution]] 2.29Å' scene=''>	+	<StructureSection load='5ew6' size='340' side='right'caption='[[5ew6]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ew6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EW6 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EW6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ew6]] 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=5EW6 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EW6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e4k\|5e4k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e4k\|5e4k]]</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=5ew6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ew6 OCA], [http://pdbe.org/5ew6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ew6 RCSB], [http://www.ebi.ac.uk/pdbsum/5ew6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ew6 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MRC2, CLEC13E, ENDO180, KIAA0709, UPARAP ([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=5ew6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ew6 OCA], [http://pdbe.org/5ew6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ew6 RCSB], [http://www.ebi.ac.uk/pdbsum/5ew6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ew6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Huang, M]]		[[Category: Huang, M]]
	[[Category: Yuan, C]]		[[Category: Yuan, C]]
	[[Category: Endocytic collagen receptor]]		[[Category: Endocytic collagen receptor]]
	[[Category: Sugar binding protein]]		[[Category: Sugar binding protein]]

OCA at 16:06, 10 August 2016

2016-08-10T16:06:42Z

←Older revision		Revision as of 16:06, 10 August 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ew6 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Structure of ligand binding region of uPARAP at pH 7.4 without calcium==
		+	<StructureSection load='5ew6' size='340' side='right' caption='[[5ew6]], [[Resolution\|resolution]] 2.29Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ew6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EW6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EW6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e4k\|5e4k]]</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=5ew6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ew6 OCA], [http://pdbe.org/5ew6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ew6 RCSB], [http://www.ebi.ac.uk/pdbsum/5ew6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ew6 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MRC2_HUMAN MRC2_HUMAN]] May play a role as endocytotic lectin receptor displaying calcium-dependent lectin activity. Internalizes glycosylated ligands from the extracellular space for release in an endosomal compartment via clathrin-mediated endocytosis. May be involved in plasminogen activation system controlling the extracellular level of PLAUR/PLAU, and thus may regulate protease activity at the cell surface. May contribute to cellular uptake, remodeling and degradation of extracellular collagen matrices. May play a role during cancer progression as well as in other chronic tissue destructive diseases acting on collagen turnover. May participate in remodeling of extracellular matrix cooperating with the matrix metalloproteinases (MMPs).<ref>PMID:10683150</ref> <ref>PMID:12972549</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The proteins of the mannose receptor (MR) family share a common domain organization and have a broad range of biological functions. Urokinase plasminogen activator receptor-associated protein (uPARAP) (or Endo180) is a member of this family and plays an important role in extracellular matrix remodelling through interaction with its ligands, including collagens and urokinase plasminogen activator receptor (uPAR). We report the crystal structures of the first four domains of uPARAP (also named the ligand-binding region, LBR) at pH 7.4 in Ca(2+)-bound and Ca(2+)-free forms. The first domain (cysteine-rich or CysR domain) folds into a new and unique conformation different from the beta-trefoil fold of typical CysR domains. The so-called long loop regions (LLRs) of the C-type lectin-like domain (CTLD) 1 and 2 (the third and fourth domain) mediate the direct contacts between these domains. These LLRs undergo a Ca(2+)-dependent conformational change, and this is likely to be the key structural determinant affecting the overall conformation of uPARAP. Our results provide a molecular mechanism to support the structural flexibility of uPARAP, and shed light on the structural flexibility of other members of the MR family.

-	~~Authors~~: ~~Yuan~~, C., ~~Huang~~, M.	+	Crystal structures of the ligand-binding region of uPARAP: effect of calcium ion binding.,Yuan C, Jurgensen HJ, Engelholm LH, Li R, Liu M, Jiang L, Luo Z, Behrendt N, Huang M Biochem J. 2016 Aug 1;473(15):2359-68. doi: 10.1042/BCJ20160276. Epub 2016 May, 31. PMID:27247422<ref>PMID:27247422</ref>

-	~~Description: Structure~~ of ~~ligand binding region~~ of ~~uPARAP at pH 7~~.~~4 without calcium~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Yuan, C]]~~	+	<div class="pdbe-citations 5ew6" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Huang, M]]		[[Category: Huang, M]]
		+	[[Category: Yuan, C]]
		+	[[Category: Endocytic collagen receptor]]
		+	[[Category: Sugar binding protein]]

OCA at 15:04, 2 December 2015

2015-12-02T15:04:10Z

←Older revision		Revision as of 15:04, 2 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ew6 is ON HOLD	+	The entry 5ew6 is ON HOLD until Paper Publication

	Authors: Yuan, C., Huang, M.		Authors: Yuan, C., Huang, M.

OCA: Protected "5ew6" [edit=sysop:move=sysop]

2015-12-01T03:28:07Z

Protected "5ew6" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:28, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5ew6 is ON HOLD Authors: Yuan, C., Huang, M. Description: Structure of ligand binding region of uPARAP at pH 7.4 without calcium [[Category: Unrele...

2015-12-01T03:28:06Z

New page: '''Unreleased structure''' The entry 5ew6 is ON HOLD Authors: Yuan, C., Huang, M. Description: Structure of ligand binding region of uPARAP at pH 7.4 without calcium [[Category: Unrele...

New page

'''Unreleased structure'''

The entry 5ew6 is ON HOLD

Authors: Yuan, C., Huang, M.

Description: Structure of ligand binding region of uPARAP at pH 7.4 without calcium
[[Category: Unreleased Structures]]
[[Category: Yuan, C]]
[[Category: Huang, M]]