+Open data
-Basic information
Entry | Database: PDB / ID: 4eeu | ||||||
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Title | Crystal structure of phiLOV2.1 | ||||||
Components | Phototropin-2 | ||||||
Keywords | SIGNALING PROTEIN / FLAVOPROTEIN / LOV / Blue light photoreceptor | ||||||
Function / homology | Function and homology information chloroplast relocation / negative regulation of anion channel activity by blue light / phototropism / stomatal movement / response to blue light / blue light photoreceptor activity / plastid / circadian rhythm / FMN binding / kinase activity ...chloroplast relocation / negative regulation of anion channel activity by blue light / phototropism / stomatal movement / response to blue light / blue light photoreceptor activity / plastid / circadian rhythm / FMN binding / kinase activity / protein autophosphorylation / non-specific serine/threonine protein kinase / protein serine kinase activity / protein serine/threonine kinase activity / Golgi apparatus / ATP binding / membrane / identical protein binding / nucleus / plasma membrane Similarity search - Function | ||||||
Biological species | Arabidopsis thaliana (thale cress) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.4068 Å | ||||||
Authors | Hitomi, K. / Christie, J.M. / Arvai, A.S. / Hartfield, K.A. / Pratt, A.J. / Tainer, J.A. / Getzoff, E.D. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2012 Title: Structural Tuning of the Fluorescent Protein iLOV for Improved Photostability. Authors: Christie, J.M. / Hitomi, K. / Arvai, A.S. / Hartfield, K.A. / Mettlen, M. / Pratt, A.J. / Tainer, J.A. / Getzoff, E.D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4eeu.cif.gz | 65.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4eeu.ent.gz | 47 KB | Display | PDB format |
PDBx/mmJSON format | 4eeu.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ee/4eeu ftp://data.pdbj.org/pub/pdb/validation_reports/ee/4eeu | HTTPS FTP |
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-Related structure data
Related structure data | 4eepC 4eerC 4eesSC 4eetC C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 13527.299 Da / Num. of mol.: 1 / Fragment: LOV DOMAIN (UNP Residues 385-496) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Arabidopsis thaliana (thale cress) / Gene: PHOT2, CAV1, KIN7, NPL1, At5g58140, K21L19.6 / Production host: Escherichia coli (E. coli) References: UniProt: P93025, non-specific serine/threonine protein kinase |
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#2: Chemical | ChemComp-FMN / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.02 Å3/Da / Density % sol: 39.25 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.6 Details: 25% MPEG 2K, 0.2 M imidazole malate, pH 8.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 12.3.1 / Wavelength: 1.11611 Å |
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Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Nov 15, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.11611 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→26.5 Å / Num. obs: 21959 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 4EES Resolution: 1.4068→26.478 Å / SU ML: 0.17 / σ(F): 0.12 / Phase error: 18.86 / 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 / Bsol: 40.077 Å2 / ksol: 0.358 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.4068→26.478 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 2.1271 Å / Origin y: 4.7287 Å / Origin z: -19.6434 Å
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Refinement TLS group | Selection details: all |