5GIJ image
Deposition Date 2016-06-23
Release Date 2016-08-24
Last Version Date 2023-11-08
Entry Detail
PDB ID:
5GIJ
Title:
Crystal structure of TDR-TDIF complex
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.00 Å
R-Value Free:
0.23
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
P 31 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Leucine-rich repeat receptor-like protein kinase TDR
Gene (Uniprot):TDR
Mutations:C259A, C540S
Chain IDs:A (auth: B)
Chain Length:607
Number of Molecules:1
Biological Source:Arabidopsis thaliana
Polymer Type:polypeptide(L)
Molecule:Peptide from CLAVATA3/ESR (CLE)-related protein 41
Gene (Uniprot):CLE41
Chain IDs:B (auth: D)
Chain Length:12
Number of Molecules:1
Biological Source:Arabidopsis thaliana
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
HYP B PRO modified residue
Ligand Molecules
Primary Citation
Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide
Nat Commun 7 12383 12383 (2016)
PMID: 27498761 DOI: 10.1038/ncomms12383

Abstact

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.

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Primary Citation of related structures