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- PDB-8qiv: CrPhotLOV1 light state structure 87.5 ms (85-90 ms) after illumin... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8qiv | |||||||||||||||
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Title | CrPhotLOV1 light state structure 87.5 ms (85-90 ms) after illumination determined by time-resolved serial synchrotron crystallography at room temperature | |||||||||||||||
![]() | Phototropin | |||||||||||||||
![]() | FLAVOPROTEIN / PHOTOTROPIN / FLAVIN / ELECTRON TRANSPORT | |||||||||||||||
Function / homology | ![]() blue light signaling pathway / blue light photoreceptor activity / protein autophosphorylation / non-specific serine/threonine protein kinase / protein phosphorylation / protein serine kinase activity / protein serine/threonine kinase activity / ATP binding / nucleus / plasma membrane / cytoplasm Similarity search - Function | |||||||||||||||
Biological species | ![]() ![]() | |||||||||||||||
Method | ![]() ![]() ![]() | |||||||||||||||
![]() | Gotthard, G. / Mous, S. / Weinert, T. / Maia, R.N.A. / James, D. / Dworkowski, F. / Gashi, D. / Antonia, F. / Wang, M. / Panepucci, E. ...Gotthard, G. / Mous, S. / Weinert, T. / Maia, R.N.A. / James, D. / Dworkowski, F. / Gashi, D. / Antonia, F. / Wang, M. / Panepucci, E. / Ozerov, D. / Schertler, G.F.X. / Heberle, J. / Standfuss, J. / Nogly, P. | |||||||||||||||
Funding support | European Union, ![]() ![]()
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![]() | ![]() Title: Capturing the blue-light activated state of the Phot-LOV1 domain from Chlamydomonas reinhardtii using time-resolved serial synchrotron crystallography. Authors: Gotthard, G. / Mous, S. / Weinert, T. / Maia, R.N.A. / James, D. / Dworkowski, F. / Gashi, D. / Furrer, A. / Ozerov, D. / Panepucci, E. / Wang, M. / Schertler, G.F.X. / Heberle, J. / Standfuss, J. / Nogly, P. | |||||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 45.9 KB | Display | ![]() |
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PDB format | ![]() | 24.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 8qi8C ![]() 8qi9C ![]() 8qiaC ![]() 8qibC ![]() 8qifC ![]() 8qigC ![]() 8qihC ![]() 8qiiC ![]() 8qikC ![]() 8qilC ![]() 8qimC ![]() 8qinC ![]() 8qioC ![]() 8qipC ![]() 8qiqC ![]() 8qirC ![]() 8qisC ![]() 8qitC ![]() 8qiuC ![]() 8qiwC C: citing same article ( |
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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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1 |
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 15338.354 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q8LPD9, non-specific serine/threonine protein kinase |
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#2: Chemical | ChemComp-FMN / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.21 Å3/Da / Density % sol: 61.68 % |
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Crystal grow | Temperature: 293 K / Method: batch mode / pH: 6.5 Details: 100 mM sodium cacodylate at pH 6.5 and 1.0 M sodium citrate dibasic trihydrate |
-Data collection
Diffraction | Mean temperature: 293 K / Serial crystal experiment: Y |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Oct 16, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.35→104.84 Å / Num. obs: 8744 / % possible obs: 100 % / Redundancy: 435.77 % / Biso Wilson estimate: 31.03 Å2 / CC1/2: 0.99 / CC star: 1 / R split: 0.1262 / Net I/σ(I): 6.61 |
Reflection shell | Resolution: 2.35→2.39 Å / Redundancy: 257.1 % / Mean I/σ(I) obs: 0.66 / Num. unique obs: 849 / CC1/2: 0.3 / CC star: 0.68 / R split: 1.4349 / % possible all: 100 |
Serial crystallography sample delivery | Method: injection |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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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 mean: 42.32 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.1→39.78 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.1→39.78 Å
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