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Crystal structure of KAI2 S95C L48I mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HRX Arabidopsis thaliana
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 293 2.2 M ammonium sulfate, 1 M HEPES pH 6.7; KAI2 protein at 13 mg/mL
Crystal Properties Matthews coefficient Solvent content 2.28 46.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.379 α = 90 b = 55.676 β = 116.02 c = 53.031 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER X 16M 2019-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 2.04 47.66 98.4 0.2 0.145 0.986 3.8 6.1 16684
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.04 2.09 80 1.201 0.822 0.41 1.3 5.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.04 47.66 15780 890 98.45 0.18521 0.18247 0.1879 0.23336 0.2359 RANDOM 33.658
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] 0.97 0.66 -1.23 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.624 r_long_range_B_refined 7.454 r_long_range_B_other 7.453 r_dihedral_angle_1_deg 6.876 r_dihedral_angle_2_deg 6.669 r_scangle_other 6.243 r_scbond_it 4.179 r_scbond_other 4.178 r_mcangle_it 3.624 r_mcangle_other 3.623
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.624 r_long_range_B_refined 7.454 r_long_range_B_other 7.453 r_dihedral_angle_1_deg 6.876 r_dihedral_angle_2_deg 6.669 r_scangle_other 6.243 r_scbond_it 4.179 r_scbond_other 4.178 r_mcangle_it 3.624 r_mcangle_other 3.623 r_mcbond_it 2.667 r_mcbond_other 2.667 r_angle_refined_deg 1.457 r_angle_other_deg 0.489 r_chiral_restr 0.068 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 2077 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing