8J68

Crystal structure of the LOV1 R60K mutant of Klebsormidium nitens phototropin


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP289.15sodium phosphate monobasic monohydrate, potassium phosphate dibasic at pH 6.9
Crystal Properties
Matthews coefficientSolvent content
2.9458.15

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.905α = 90
b = 53.905β = 90
c = 137.408γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 2M2022-09-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE MASSIF-10.965459ESRFMASSIF-1

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
11.84553.90584.80.99912.76.515532
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)
11.8455.0050.999

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1.84538.1461277066870.0070.1730.17080.224134.307
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]
-0.016-0.0160.031
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg15.348
r_dihedral_angle_6_deg15.046
r_lrange_it8.973
r_lrange_other8.942
r_dihedral_angle_2_deg8.571
r_scangle_it7.239
r_scangle_other7.234
r_dihedral_angle_1_deg6.854
r_scbond_it4.867
r_mcangle_it4.825
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg15.348
r_dihedral_angle_6_deg15.046
r_lrange_it8.973
r_lrange_other8.942
r_dihedral_angle_2_deg8.571
r_scangle_it7.239
r_scangle_other7.234
r_dihedral_angle_1_deg6.854
r_scbond_it4.867
r_mcangle_it4.825
r_scbond_other4.825
r_mcangle_other4.824
r_mcbond_it3.532
r_mcbond_other3.53
r_angle_refined_deg1.592
r_angle_other_deg0.528
r_symmetry_xyhbond_nbd_refined0.238
r_nbd_refined0.236
r_symmetry_nbd_other0.206
r_nbtor_refined0.186
r_xyhbond_nbd_refined0.174
r_nbd_other0.151
r_symmetry_nbd_refined0.126
r_symmetry_nbtor_other0.087
r_chiral_restr0.077
r_gen_planes_refined0.009
r_bond_refined_d0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms962
Nucleic Acid Atoms
Solvent Atoms103
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing