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N- and C-terminal helices of oat LOV2 (404-546) are involved in light- induced signal transduction (cryo-trapped light structure of LOV2 (404-546))
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V0U PDB ENTRY 2V0U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP Reservoir: 0.07 M sodium acetate, pH 4.6, 5.6% PEG 4000, 30% glycerol
Crystal Properties Matthews coefficient Solvent content 2.07 40.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.565 α = 90 b = 56.021 β = 90 c = 66.507 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 105 CCD MARRESEARCH BENT CONICAL SI-MIRROR (RH COATED) M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 50 98 0.043 27 3.3 50154
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 93 0.36 3.3 3.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2V0U 1.7 16.05 14199 748 97.7 0.163 0.16 0.215 0.2675 RANDOM 13.43
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] -0.17 0.37 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.702 r_dihedral_angle_4_deg 17.015 r_dihedral_angle_3_deg 12.351 r_dihedral_angle_1_deg 6.527 r_scangle_it 3.547 r_scbond_it 2.566 r_angle_refined_deg 1.553 r_mcangle_it 1.173 r_mcbond_it 1.106 r_angle_other_deg 0.941
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.702 r_dihedral_angle_4_deg 17.015 r_dihedral_angle_3_deg 12.351 r_dihedral_angle_1_deg 6.527 r_scangle_it 3.547 r_scbond_it 2.566 r_angle_refined_deg 1.553 r_mcangle_it 1.173 r_mcbond_it 1.106 r_angle_other_deg 0.941 r_symmetry_vdw_other 0.327 r_symmetry_vdw_refined 0.265 r_nbd_refined 0.247 r_symmetry_hbond_refined 0.245 r_nbd_other 0.202 r_xyhbond_nbd_refined 0.193 r_nbtor_refined 0.186 r_chiral_restr 0.09 r_nbtor_other 0.084 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1186 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing