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Crystal structure of Csm6 H381A in complex with cA4 by cocrystallization of cA4 and Csm6
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 2.52 51.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.292 α = 90 b = 115.94 β = 90 c = 159.399 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 100 PIXEL DECTRIS PILATUS 6M 2018-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9791 APS 24-ID-E
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 2.1 50 99.4 0.055 16.9 10.9 59191
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 2.1 2.18
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 6O6Z 2.1 48.35 56115 2981 99.23 0.19394 0.19247 0.1976 0.22155 0.2146 RANDOM 40.976
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] 0.6 2.21 -2.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.251 r_dihedral_angle_4_deg 21.711 r_dihedral_angle_3_deg 17.944 r_long_range_B_other 9.597 r_long_range_B_refined 9.593 r_scangle_other 7.623 r_dihedral_angle_1_deg 7.328 r_mcangle_it 5.123 r_mcangle_other 5.123 r_scbond_it 5.041
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.251 r_dihedral_angle_4_deg 21.711 r_dihedral_angle_3_deg 17.944 r_long_range_B_other 9.597 r_long_range_B_refined 9.593 r_scangle_other 7.623 r_dihedral_angle_1_deg 7.328 r_mcangle_it 5.123 r_mcangle_other 5.123 r_scbond_it 5.041 r_scbond_other 5.04 r_mcbond_it 3.632 r_mcbond_other 3.624 r_angle_refined_deg 1.728 r_angle_other_deg 1.344 r_chiral_restr 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 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 6860 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms 88
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing