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| | <StructureSection load='5gij' size='340' side='right'caption='[[5gij]], [[Resolution|resolution]] 3.00Å' scene=''> | | <StructureSection load='5gij' size='340' side='right'caption='[[5gij]], [[Resolution|resolution]] 3.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5gij]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GIJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5GIJ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5gij]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GIJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GIJ FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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]] 3Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=HYP:4-HYDROXYPROLINE'>HYP</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=HYP:4-HYDROXYPROLINE'>HYP</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TDR, PXY, At5g61480, MCI2.4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=5gij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gij OCA], [https://pdbe.org/5gij PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gij RCSB], [https://www.ebi.ac.uk/pdbsum/5gij PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gij ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=5gij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gij OCA], [http://pdbe.org/5gij PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gij RCSB], [http://www.ebi.ac.uk/pdbsum/5gij PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gij ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/TDR_ARATH TDR_ARATH]] Acts with CLE41p and CLE44p peptides as a ligand-receptor pair in a signal transduction pathway involved in the regulation of procambium maintenance and polarity during vascular-tissue development. Mediates repression of tracheary element differentiation and the promotion of procambial cells formation and polar division adjacent to phloem cells in the veins.<ref>PMID:17570668</ref> <ref>PMID:18812507</ref> [[http://www.uniprot.org/uniprot/CLE41_ARATH CLE41_ARATH]] Extracellular signal peptide that regulates cell fate. May act with TDR as a ligand-receptor pair in a signal transduction pathway that represses tracheary element differentiation but promotes the formation of procambial cells adjacent to phloem cells in the veins in an auxin-dependent manner.<ref>PMID:16902140</ref> <ref>PMID:18812507</ref> <ref>PMID:19011104</ref> | + | [https://www.uniprot.org/uniprot/TDR_ARATH TDR_ARATH] Acts with CLE41p and CLE44p peptides as a ligand-receptor pair in a signal transduction pathway involved in the regulation of procambium maintenance and polarity during vascular-tissue development. Mediates repression of tracheary element differentiation and the promotion of procambial cells formation and polar division adjacent to phloem cells in the veins.<ref>PMID:17570668</ref> <ref>PMID:18812507</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: Arath]] | + | [[Category: Arabidopsis thaliana]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Non-specific serine/threonine protein kinase]]
| + | [[Category: Ishitani R]] |
| - | [[Category: Ishitani, R]] | + | [[Category: Kato K]] |
| - | [[Category: Kato, K]] | + | [[Category: Morita J]] |
| - | [[Category: Morita, J]] | + | [[Category: Nishimasu H]] |
| - | [[Category: Nishimasu, H]] | + | [[Category: Nureki O]] |
| - | [[Category: Nureki, O]] | + | |
| - | [[Category: Lrr]]
| + | |
| - | [[Category: Lrr-rk]]
| + | |
| - | [[Category: Pxy]]
| + | |
| - | [[Category: Signaling protein]]
| + | |
| - | [[Category: Tdif]]
| + | |
| - | [[Category: Tdr]]
| + | |
| Structural highlights
Function
TDR_ARATH Acts with CLE41p and CLE44p peptides as a ligand-receptor pair in a signal transduction pathway involved in the regulation of procambium maintenance and polarity during vascular-tissue development. Mediates repression of tracheary element differentiation and the promotion of procambial cells formation and polar division adjacent to phloem cells in the veins.[1] [2]
Publication Abstract from PubMed
In plants, leucine-rich repeat receptor-like kinases (LRR-RKs) perceive ligands, including peptides and small molecules, to regulate various physiological processes. TDIF, a member of the CLE peptide family, specifically interacts with the LRR-RK TDR to inhibit meristem differentiation into tracheary elements, and promotes cell proliferation. Here we report the crystal structure of the extracellular domain of TDR in complex with the TDIF peptide. The extracellular domain of TDR adopts a superhelical structure comprising 22 LRRs, and specifically recognizes TDIF by its inner concave surface. Together with our biochemical and sequence analyses, our structure reveals a conserved TDIF-recognition mechanism of TDR among plant species. Furthermore, a structural comparison of TDR with other plant LRR-RKs suggested the activation mechanism of TDR by TDIF. The structure of this CLE peptide receptor provides insights into the recognition mechanism of the CLE family peptides.
Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide.,Morita J, Kato K, Nakane T, Kondo Y, Fukuda H, Nishimasu H, Ishitani R, Nureki O Nat Commun. 2016 Aug 8;7:12383. doi: 10.1038/ncomms12383. PMID:27498761[3]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Fisher K, Turner S. PXY, a receptor-like kinase essential for maintaining polarity during plant vascular-tissue development. Curr Biol. 2007 Jun 19;17(12):1061-6. PMID:17570668 doi:http://dx.doi.org/10.1016/j.cub.2007.05.049
- ↑ Hirakawa Y, Shinohara H, Kondo Y, Inoue A, Nakanomyo I, Ogawa M, Sawa S, Ohashi-Ito K, Matsubayashi Y, Fukuda H. Non-cell-autonomous control of vascular stem cell fate by a CLE peptide/receptor system. Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):15208-13. doi:, 10.1073/pnas.0808444105. Epub 2008 Sep 23. PMID:18812507 doi:http://dx.doi.org/10.1073/pnas.0808444105
- ↑ Morita J, Kato K, Nakane T, Kondo Y, Fukuda H, Nishimasu H, Ishitani R, Nureki O. Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide. Nat Commun. 2016 Aug 8;7:12383. doi: 10.1038/ncomms12383. PMID:27498761 doi:http://dx.doi.org/10.1038/ncomms12383
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