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Crystal structure of Csm6 H132A mutant in complex with cA4 by cocrystallization of cA4 and Csm6 H132A mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6O6S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 293 10% PEG 8K, 0.2 M NaCl, 0.1 M
Na/K phosphate pH 6.2
Crystal Properties Matthews coefficient Solvent content 2.4 48.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.119 α = 90 b = 163.779 β = 90 c = 110.71 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 PIXEL DECTRIS PILATUS 6M 2018-12-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.9791 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 2.3 50 99.9 0.061 13.4 11.8 41482
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38
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 6O6S 2.3 48.3 37482 3978 99.34 0.21647 0.2118 0.2122 0.26158 0.2605 RANDOM 57.456
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] 3.49 -3.33 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.589 r_dihedral_angle_4_deg 16.335 r_dihedral_angle_3_deg 15.52 r_long_range_B_refined 7.238 r_long_range_B_other 7.238 r_dihedral_angle_1_deg 6.676 r_scangle_other 4.75 r_mcangle_it 4.061 r_mcangle_other 4.06 r_scbond_it 2.803
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.589 r_dihedral_angle_4_deg 16.335 r_dihedral_angle_3_deg 15.52 r_long_range_B_refined 7.238 r_long_range_B_other 7.238 r_dihedral_angle_1_deg 6.676 r_scangle_other 4.75 r_mcangle_it 4.061 r_mcangle_other 4.06 r_scbond_it 2.803 r_scbond_other 2.803 r_mcbond_it 2.519 r_mcbond_other 2.519 r_angle_refined_deg 1.301 r_angle_other_deg 1.09 r_chiral_restr 0.049 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 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 6880 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 132
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing