5Z7Z

Crystal structure of Striga hermonthica Dwarf14 (ShD14)

  • Classification: HYDROLASE
  • Organism(s): Striga hermonthica
  • Expression System: Escherichia coli BL21(DE3)
  • Mutation(s): No 

  • Deposited: 2018-01-30 Released: 2018-08-29 
  • Deposition Author(s): Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
  • Funding Organization(s): Platform for Drug Discovery, Informatics, and Structural Life Science from the Ministry of Education, Culture, Sports, Science and Technology of Japan, Core Research for Evolutional Science and Technology Program of Japan Science and Technology Agency, Grant-in-Aid for Scientific Research on Innovative Areas from the Japan Society for the Promotion of Science (JSPS), JSPS KAKENHI

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.

Xu, Y.Miyakawa, T.Nosaki, S.Nakamura, A.Lyu, Y.Nakamura, H.Ohto, U.Ishida, H.Shimizu, T.Asami, T.Tanokura, M.

(2018) Nat Commun 9: 3947-3947

  • DOI: 10.1038/s41467-018-06452-2
  • Primary Citation of Related Structures:  
    5Z7Z, 5Z7W, 5Z7Y, 5Z7X

  • PubMed Abstract: 
  • HYPOSENSITIVE TO LIGHT (HTL) and DWARF14 (D14) mediate the perception of karrikin and strigolactone, which stimulates germination of the parasitic weed Striga. However, their role in parasitic seeds is poorly understood, and the basis for their differing responsiveness remains unclear ...

    HYPOSENSITIVE TO LIGHT (HTL) and DWARF14 (D14) mediate the perception of karrikin and strigolactone, which stimulates germination of the parasitic weed Striga. However, their role in parasitic seeds is poorly understood, and the basis for their differing responsiveness remains unclear. Here, we show that Striga hermonthica HTL proteins (ShHTLs) in 'conserved' and 'intermediate' clades are able to bind karrikin. The 'divergent' clade is able to hydrolyze strigolactone. Unexpectedly, we find that ShD14 is also capable of hydrolyzing strigolactone. Through comparative analysis of ShHTLs and ShD14 crystal structures, we provide insights into the basis for their selectivity. Moreover, we show that both ShD14 and divergent clade ShHTLs, but not conserved and intermediate clade ShHTLs, can interact with the putative downstream signaling component ShMAX2 in the presence of the synthetic strigolactone, rac-GR24. These findings provide insight into how strigolactone is perceived and how ligand specificity is determined.


    Organizational Affiliation

    Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan. amtanok@mail.ecc.u-tokyo.ac.jp.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Dwarf 14A, B272Striga hermonthicaMutation(s): 0 
UniProt
Find proteins for A0A2U8XQ45 (Striga hermonthica)
Explore A0A2U8XQ45 
Go to UniProtKB:  A0A2U8XQ45
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.210 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.662α = 90
b = 70.316β = 94.03
c = 84.684γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Platform for Drug Discovery, Informatics, and Structural Life Science from the Ministry of Education, Culture, Sports, Science and Technology of JapanJapan--
Core Research for Evolutional Science and Technology Program of Japan Science and Technology AgencyJapan--
Grant-in-Aid for Scientific Research on Innovative Areas from the Japan Society for the Promotion of Science (JSPS)JapanJP17H05835
JSPS KAKENHIJapanJP15H05621

Revision History  (Full details and data files)

  • Version 1.0: 2018-08-29
    Type: Initial release
  • Version 1.1: 2019-03-13
    Changes: Data collection, Database references