4pbx: Difference between revisions

Revision as of 12:51, 1 February 2023

Crystal structure of the six N-terminal domains of human receptor protein tyrosine phosphatase sigma

Structural highlights

4pbx is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	NAG
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PTPRS_HUMAN Interacts with LAR-interacting protein LIP.1.

Publication Abstract from PubMed

Receptor protein tyrosine phosphatase sigma (RPTPsigma) regulates neuronal extension and acts as a presynaptic nexus for multiple protein and proteoglycan interactions during synaptogenesis. Unknown mechanisms govern the shift in RPTPsigma function, from outgrowth promotion to synaptic organization. Here, we report crystallographic, electron microscopic and small-angle X-ray scattering analyses, which reveal sufficient inter-domain flexibility in the RPTPsigma extracellular region for interaction with both cis (same cell) and trans (opposite cell) ligands. Crystal structures of RPTPsigma bound to its postsynaptic ligand TrkC detail an interaction surface partially overlapping the glycosaminoglycan-binding site. Accordingly, heparan sulphate and heparin oligomers compete with TrkC for RPTPsigma binding in vitro and disrupt TrkC-dependent synaptic differentiation in neuronal co-culture assays. We propose that transient RPTPsigma ectodomain emergence from the presynaptic proteoglycan layer allows capture by TrkC to form a trans-synaptic complex, the consequent reduction in RPTPsigma flexibility potentiating interactions with additional ligands to orchestrate excitatory synapse formation.

Structural basis for extracellular cis and trans RPTPsigma signal competition in synaptogenesis.,Coles CH, Mitakidis N, Zhang P, Elegheert J, Lu W, Stoker AW, Nakagawa T, Craig AM, Jones EY, Aricescu AR Nat Commun. 2014 Nov 11;5:5209. doi: 10.1038/ncomms6209. PMID:25385546^[1]

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

References

↑ Coles CH, Mitakidis N, Zhang P, Elegheert J, Lu W, Stoker AW, Nakagawa T, Craig AM, Jones EY, Aricescu AR. Structural basis for extracellular cis and trans RPTPsigma signal competition in synaptogenesis. Nat Commun. 2014 Nov 11;5:5209. doi: 10.1038/ncomms6209. PMID:25385546 doi:https://dx.doi.org/10.1038/ncomms6209

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OCA

[1] Coles CH, Mitakidis N, Zhang P, Elegheert J, Lu W, Stoker AW, Nakagawa T, Craig AM, Jones EY, Aricescu AR. Structural basis for extracellular cis and trans RPTPsigma signal competition in synaptogenesis. Nat Commun. 2014 Nov 11;5:5209. doi: 10.1038/ncomms6209. PMID:25385546 doi:https://dx.doi.org/10.1038/ncomms6209

[1]

@@ Line 3: / Line 3: @@
 <StructureSection load='4pbx' size='340' side='right'caption='[[4pbx]], [[Resolution|resolution]] 3.15&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4pbx]] 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=4PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PBX FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4pbx]] 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=4PBX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PBX FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2yd2|2yd2]], [[2yd3|2yd3]], [[2yd9|2yd9]]</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=4pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pbx OCA], [https://pdbe.org/4pbx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pbx RCSB], [https://www.ebi.ac.uk/pdbsum/4pbx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pbx ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PTPRS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=4pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pbx OCA], [http://pdbe.org/4pbx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pbx RCSB], [http://www.ebi.ac.uk/pdbsum/4pbx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pbx ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/PTPRS_HUMAN PTPRS_HUMAN]] Interacts with LAR-interacting protein LIP.1.
+[https://www.uniprot.org/uniprot/PTPRS_HUMAN PTPRS_HUMAN] Interacts with LAR-interacting protein LIP.1.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 20: @@
 ==See Also==
-*[[Tyrosine phosphatase|Tyrosine phosphatase]]
+*[[Tyrosine phosphatase 3D structures|Tyrosine phosphatase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Protein-tyrosine-phosphatase]]
+[[Category: Aricescu AR]]
-[[Category: Aricescu, A R]]
+[[Category: Coles CH]]
-[[Category: Coles, C H]]
+[[Category: Craig AM]]
-[[Category: Craig, A M]]
+[[Category: Elegheert J]]
-[[Category: Elegheert, J]]
+[[Category: Jones EY]]
-[[Category: Jones, E Y]]
+[[Category: Lu W]]
-[[Category: Lu, W]]
+[[Category: Mitakidis N]]
-[[Category: Mitakidis, N]]
+[[Category: Nakagawa T]]
-[[Category: Nakagawa, T]]
+[[Category: Stoker AW]]
-[[Category: Stoker, A W]]
+[[Category: Zhang P]]
-[[Category: Zhang, P]]
-[[Category: Hydrolase]]
-[[Category: Signaling protein]]
-[[Category: Synapse cell signalling cell surface receptor]]

4pbx: Difference between revisions

Revision as of 12:51, 1 February 2023

Crystal structure of the six N-terminal domains of human receptor protein tyrosine phosphatase sigma

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

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