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- PDB-7f5w: Conserved and divergent strigolactone signaling in Saccharum spon... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7f5w | ||||||
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Title | Conserved and divergent strigolactone signaling in Saccharum spontaneum | ||||||
![]() | High tillering and dwarf 2 protein | ||||||
![]() | PLANT PROTEIN / hydrolase protein DWARF 14 SL RECEPTOR | ||||||
Function / homology | Strigolactone esterase D14 family / lysophospholipase / strigolactone biosynthetic process / secondary shoot formation / Alpha/beta hydrolase family / Alpha/beta hydrolase fold-1 / Alpha/Beta hydrolase fold / hydrolase activity / High tillering and dwarf 2 protein![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhao, Q.Q. / Ming, Z.H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Identification of Conserved and Divergent Strigolactone Receptors in Sugarcane Reveals a Key Residue Crucial for Plant Branching Control. Authors: Hu, A. / Zhao, Q. / Chen, L. / Zhao, J. / Wang, Y. / Feng, K. / Wu, L. / Xie, M. / Zhou, X. / Xiao, L. / Ming, Z. / Zhang, M. / Yao, R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 223.5 KB | Display | ![]() |
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PDB format | ![]() | 177.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.5 KB | Display | ![]() |
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Full document | ![]() | 441 KB | Display | |
Data in XML | ![]() | 24 KB | Display | |
Data in CIF | ![]() | 35.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3vxkS S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 32805.363 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: HTD2 Production host: ![]() ![]() References: UniProt: A0A0D5NT23 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.92 Å3/Da / Density % sol: 35.79 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop Details: 0.01 M Magnesium chloride hexahydrate, 0.05 M TRIS hydrochloride pH 7.5, 5% v/v 2-Propanol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Sep 10, 2019 |
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979183 Å / Relative weight: 1 |
Reflection | Resolution: 1.65→70.81 Å / Num. obs: 110054 / % possible obs: 93.6 % / Redundancy: 6.144 % / Rrim(I) all: 0.115 / Net I/σ(I): 12.1 |
Reflection shell | Resolution: 1.65→1.74 Å / Rmerge(I) obs: 0.744 / Num. unique obs: 58049 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3VXK Resolution: 1.654→70.806 Å / SU ML: 0.28 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 24.81 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 86.15 Å2 / Biso mean: 28.3539 Å2 / Biso min: 9.33 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.654→70.806 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0
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Refinement TLS params. | Method: refined / Origin x: 22.4898 Å / Origin y: 2.9856 Å / Origin z: -4.7336 Å
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Refinement TLS group |
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