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| | ==NMR solution structure of midkine-b, mdkb== | | ==NMR solution structure of midkine-b, mdkb== |
| - | <StructureSection load='2luu' size='340' side='right'caption='[[2luu]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''> | + | <StructureSection load='2luu' size='340' side='right'caption='[[2luu]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2luu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LUU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LUU FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2luu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LUU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LUU FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mkn|1mkn]], [[1mkc|1mkc]], [[2lut|2lut]]</div></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=2luu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2luu OCA], [https://pdbe.org/2luu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2luu RCSB], [https://www.ebi.ac.uk/pdbsum/2luu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2luu ProSAT]</span></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">mdkb, mdk2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</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=2luu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2luu OCA], [https://pdbe.org/2luu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2luu RCSB], [https://www.ebi.ac.uk/pdbsum/2luu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2luu ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q9DDG2_DANRE Q9DDG2_DANRE] |
| | <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: Brachidanio rerio]] | + | [[Category: Danio rerio]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Lim, J]] | + | [[Category: Lim J]] |
| - | [[Category: Meng, D]] | + | [[Category: Meng D]] |
| - | [[Category: Yang, D]] | + | [[Category: Yang D]] |
| - | [[Category: Beta sheet]]
| + | |
| - | [[Category: Disulfide bond]]
| + | |
| - | [[Category: Hormone]]
| + | |
| - | [[Category: Independent half-domain]]
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| Structural highlights
Function
Q9DDG2_DANRE
Publication Abstract from PubMed
Midkine is a heparin-binding di-domain growth factor, implicated in many biological processes as diverse as angiogenesis, neurogenesis and tumorigenesis. Elevated midkine levels reflect poor prognosis for many carcinomas, yet the molecular and cellular mechanisms orchestrating its activity remain unclear. At the present time, the individual structures of isolated half domains of human midkine are known and its functionally active C-terminal half domain remains a popular therapeutic target. In the present study, we determined the structure of full-length zebrafish midkine and show that it interacts with fondaparinux (a synthetic highly sulfated pentasaccharide) and natural heparin through a previously uncharacterized, but highly conserved, hinge region. Mutating six consecutive residues in the conserved hinge to glycine strongly abates heparin binding and midkine embryogenic activity. In contrast with previous in vitro studies, we found that the isolated C-terminal half domain is not active in vivo in embryos. Instead, we have demonstrated that the N-terminal half domain is needed to enhance heparin binding and mediate midkine embryogenic activity surprisingly in both heparin-dependent and -independent manners. Our findings provide new insights into the structural features of full-length midkine relevant for embryogenesis, and unravel additional therapeutic routes targeting the N-terminal half domain and conserved hinge.
Structure-function analysis of full-length midkine reveals novel residues important for heparin binding and zebrafish embryogenesis.,Lim J, Yao S, Graf M, Winkler C, Yang D Biochem J. 2013 May 1;451(3):407-15. doi: 10.1042/BJ20121622. PMID:23418741[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Lim J, Yao S, Graf M, Winkler C, Yang D. Structure-function analysis of full-length midkine reveals novel residues important for heparin binding and zebrafish embryogenesis. Biochem J. 2013 May 1;451(3):407-15. doi: 10.1042/BJ20121622. PMID:23418741 doi:http://dx.doi.org/10.1042/BJ20121622
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