This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

5e4k

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 06:43, 22 April 2020

Structure of ligand binding region of uPARAP at pH 7.4

Structural highlights

5e4k is a 1 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , , ,
Related:	5e4l
Gene:	MRC2, CLEC13E, ENDO180, KIAA0709, UPARAP (HUMAN)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[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).^[1] ^[2]

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.

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^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Sheikh H, Yarwood H, Ashworth A, Isacke CM. Endo180, an endocytic recycling glycoprotein related to the macrophage mannose receptor is expressed on fibroblasts, endothelial cells and macrophages and functions as a lectin receptor. J Cell Sci. 2000 Mar;113 ( Pt 6):1021-32. PMID:10683150
↑ Wienke D, MacFadyen JR, Isacke CM. Identification and characterization of the endocytic transmembrane glycoprotein Endo180 as a novel collagen receptor. Mol Biol Cell. 2003 Sep;14(9):3592-604. Epub 2003 Jul 25. PMID:12972549 doi:http://dx.doi.org/10.1091/mbc.E02-12-0814
↑ Yuan C, Jurgensen HJ, Engelholm LH, Li R, Liu M, Jiang L, Luo Z, Behrendt N, Huang M. Crystal structures of the ligand-binding region of uPARAP: effect of calcium ion binding. Biochem J. 2016 Aug 1;473(15):2359-68. doi: 10.1042/BCJ20160276. Epub 2016 May, 31. PMID:27247422 doi:http://dx.doi.org/10.1042/BCJ20160276

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5e4k"

@@ Line 1: / Line 1: @@
 ==Structure of ligand binding region of uPARAP at pH 7.4==
-<StructureSection load='5e4k' size='340' side='right' caption='[[5e4k]], [[Resolution|resolution]] 2.58&Aring;' scene=''>
+<StructureSection load='5e4k' size='340' side='right'caption='[[5e4k]], [[Resolution|resolution]] 2.58&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5e4k]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E4K FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5e4k]] 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=5E4K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5E4K 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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PE5:3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL'>PE5</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PE5:3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL'>PE5</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5e4l|5e4l]]</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=5e4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4k OCA], [http://pdbe.org/5e4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4k RCSB], [http://www.ebi.ac.uk/pdbsum/5e4k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4k 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=5e4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4k OCA], [http://pdbe.org/5e4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4k RCSB], [http://www.ebi.ac.uk/pdbsum/5e4k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4k ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 23: / Line 24: @@
 __TOC__
 </StructureSection>
+[[Category: Human]]
+[[Category: Large Structures]]
 [[Category: Huang, M]]
 [[Category: Yuan, C]]
 [[Category: Endocytic collagen receptor]]
 [[Category: Sugar binding protein]]

5e4k

From Proteopedia

Revision as of 06:43, 22 April 2020

Structure of ligand binding region of uPARAP at pH 7.4

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox