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Cryogenic temperature structure of blue light-irradiated AtPhot2LOV2 recorded after an accumulated dose of 48 kGy
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EEP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 12-17% PEG8000
0.2 M Calcium Acetate
0.1 M MES
Crystal Properties Matthews coefficient Solvent content 1.78 30.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.324 α = 90 b = 40.324 β = 90 c = 131.281 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2016-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.976 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.7 38.55 99.8 0.998 10.39 6.24 12659 29.08
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 98.8 0.791 1.73 6.45
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4EEP 1.7 38.55 12048 619 99.84 0.19088 0.18961 0.1994 0.21629 0.23 RANDOM 23.729
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] 0.85 0.85 -1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.563 r_dihedral_angle_4_deg 24.316 r_dihedral_angle_3_deg 12.722 r_dihedral_angle_1_deg 6.509 r_long_range_B_refined 4.252 r_long_range_B_other 4.144 r_scangle_other 2.405 r_mcangle_it 1.77 r_mcangle_other 1.769 r_angle_refined_deg 1.642
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.563 r_dihedral_angle_4_deg 24.316 r_dihedral_angle_3_deg 12.722 r_dihedral_angle_1_deg 6.509 r_long_range_B_refined 4.252 r_long_range_B_other 4.144 r_scangle_other 2.405 r_mcangle_it 1.77 r_mcangle_other 1.769 r_angle_refined_deg 1.642 r_scbond_other 1.455 r_scbond_it 1.453 r_angle_other_deg 1.204 r_mcbond_it 1.131 r_mcbond_other 1.131 r_chiral_restr 0.058 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 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 Atoms Number Protein Atoms 955 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing