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| | ==Solution structure of the extracellular domain of Prod1, a protein implicated in proximodistal identity during amphibian limb regeneration== | | ==Solution structure of the extracellular domain of Prod1, a protein implicated in proximodistal identity during amphibian limb regeneration== |
| - | <StructureSection load='2jve' size='340' side='right' caption='[[2jve]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='2jve' size='340' side='right'caption='[[2jve]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2jve]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Eastern_newt Eastern newt]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JVE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JVE FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2jve]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Notophthalmus_viridescens Notophthalmus viridescens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JVE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JVE FirstGlance]. <br> |
| - | </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=2jve FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jve OCA], [http://pdbe.org/2jve PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jve RCSB], [http://www.ebi.ac.uk/pdbsum/2jve PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jve ProSAT]</span></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=2jve FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jve OCA], [https://pdbe.org/2jve PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jve RCSB], [https://www.ebi.ac.uk/pdbsum/2jve PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jve ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/A8D0E6_NOTVI A8D0E6_NOTVI] |
| | <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: Eastern newt]] | + | [[Category: Large Structures]] |
| - | [[Category: Driscoll, P C]] | + | [[Category: Notophthalmus viridescens]] |
| - | [[Category: Esposito, D]] | + | [[Category: Driscoll PC]] |
| - | [[Category: Garza-Garcia, A]] | + | [[Category: Esposito D]] |
| - | [[Category: Harris, R]] | + | [[Category: Garza-Garcia A]] |
| - | [[Category: Cd59]]
| + | [[Category: Harris R]] |
| - | [[Category: Limb regeneration]]
| + | |
| - | [[Category: Ly-6]]
| + | |
| - | [[Category: Three-finger snake toxin]]
| + | |
| - | [[Category: Toxin]]
| + | |
| - | [[Category: Upar]]
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| Structural highlights
Function
A8D0E6_NOTVI
Publication Abstract from PubMed
BACKGROUND: Following the amputation of a limb, newts and salamanders have the capability to regenerate the lost tissues via a complex process that takes place at the site of injury. Initially these cells undergo dedifferentiation to a state competent to regenerate the missing limb structures. Crucially, dedifferentiated cells have memory of their level of origin along the proximodistal (PD) axis of the limb, a property known as positional identity. Notophthalmus viridescens Prod1 is a cell-surface molecule of the three-finger protein (TFP) superfamily involved in the specification of newt limb PD identity. The TFP superfamily is a highly diverse group of metazoan proteins that includes snake venom toxins, mammalian transmembrane receptors and miscellaneous signaling molecules. METHODOLOGY/PRINCIPAL FINDINGS: With the aim of identifying potential orthologs of Prod1, we have solved its 3D structure and compared it to other known TFPs using phylogenetic techniques. The analysis shows that TFP 3D structures group in different categories according to function. Prod1 clusters with other cell surface protein TFP domains including the complement regulator CD59 and the C-terminal domain of urokinase-type plasminogen activator. To infer orthology, a structure-based multiple sequence alignment of representative TFP family members was built and analyzed by phylogenetic methods. Prod1 has been proposed to be the salamander CD59 but our analysis fails to support this association. Prod1 is not a good match for any of the TFP families present in mammals and this result was further supported by the identification of the putative orthologs of both CD59 and N. viridescens Prod1 in sequence data for the salamander Ambystoma tigrinum. CONCLUSIONS/SIGNIFICANCE: The available data suggest that Prod1, and thereby its role in encoding PD identity, is restricted to salamanders. The lack of comparable limb-regenerative capability in other adult vertebrates could be correlated with the absence of the Prod1 gene.
Solution structure and phylogenetics of Prod1, a member of the three-finger protein superfamily implicated in salamander limb regeneration.,Garza-Garcia A, Harris R, Esposito D, Gates PB, Driscoll PC PLoS One. 2009 Sep 22;4(9):e7123. doi: 10.1371/journal.pone.0007123. PMID:19771161[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Garza-Garcia A, Harris R, Esposito D, Gates PB, Driscoll PC. Solution structure and phylogenetics of Prod1, a member of the three-finger protein superfamily implicated in salamander limb regeneration. PLoS One. 2009 Sep 22;4(9):e7123. doi: 10.1371/journal.pone.0007123. PMID:19771161 doi:http://dx.doi.org/10.1371/journal.pone.0007123
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