6QQJ

Room temperature structure of the ground state of AtPhot2LOV2 recorded after an accumulated dose of 354 kGy


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4EEP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP629312-17% PEG8000 0.2 M Calcium acetate 0.1 M MES
Crystal Properties
Matthews coefficientSolvent content
1.8533.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.886α = 90
b = 40.886β = 90
c = 132.691γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELDECTRIS EIGER R 4M2016-05-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE MASSIF-30.968ESRFMASSIF-3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.0839.0793.60.99910.728.577399
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.082.1587.40.5011.73

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4EEP2.0824.21655432294.140.249250.247310.29153RANDOM38.703
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.201
r_dihedral_angle_4_deg16.807
r_dihedral_angle_3_deg12.216
r_dihedral_angle_1_deg6.448
r_long_range_B_refined3.496
r_long_range_B_other3.494
r_mcangle_it2.075
r_mcangle_other2.074
r_scangle_other2.067
r_angle_refined_deg1.239
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.201
r_dihedral_angle_4_deg16.807
r_dihedral_angle_3_deg12.216
r_dihedral_angle_1_deg6.448
r_long_range_B_refined3.496
r_long_range_B_other3.494
r_mcangle_it2.075
r_mcangle_other2.074
r_scangle_other2.067
r_angle_refined_deg1.239
r_mcbond_it1.235
r_mcbond_other1.233
r_scbond_other1.227
r_scbond_it1.226
r_angle_other_deg1.029
r_chiral_restr0.036
r_gen_planes_refined0.003
r_bond_refined_d0.002
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms895
Nucleic Acid Atoms
Solvent Atoms8
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing