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Crystal structure of D1050A mutant of the receiver domain of the histidine kinase CKI1 from Arabidopsis thaliana
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MM4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.05 290.15 2.54 M (NH4)2(SO4), 0.1 M MES pH 5.05
Crystal Properties Matthews coefficient Solvent content 2.43 49.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.176 α = 90 b = 101.005 β = 90 c = 79.464 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2009-11-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 0.975220 EMBL/DESY, HAMBURG X12
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 1.6 47.05 98.9 0.023 37.9 6.4 28315
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 1.6 1.69 95.3 0.175 5.4 3.6
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 3MM4 1.6 42.51 26733 1423 98.38 0.19418 0.1924 0.2041 0.22806 0.2315 RANDOM 32.103
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] 2.24 -0.52 -1.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.18 r_dihedral_angle_3_deg 15.82 r_dihedral_angle_4_deg 13.859 r_long_range_B_refined 8.645 r_long_range_B_other 8.503 r_scangle_other 7.513 r_dihedral_angle_1_deg 5.939 r_scbond_it 5.099 r_scbond_other 5.095 r_mcangle_it 4.224
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.18 r_dihedral_angle_3_deg 15.82 r_dihedral_angle_4_deg 13.859 r_long_range_B_refined 8.645 r_long_range_B_other 8.503 r_scangle_other 7.513 r_dihedral_angle_1_deg 5.939 r_scbond_it 5.099 r_scbond_other 5.095 r_mcangle_it 4.224 r_mcangle_other 4.222 r_mcbond_it 3.129 r_mcbond_other 3.117 r_angle_refined_deg 2.377 r_angle_other_deg 1.134 r_chiral_restr 0.148 r_bond_refined_d 0.026 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 1162 Nucleic Acid Atoms Solvent Atoms 137 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing