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Crystal structure of OphA-DeltaC6 mutant R72A in complex with SAH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289 0.3-0.4 M KSCN, 1.5-1.9 M sodium malonate and 0.1 M bicine pH 9.0
Crystal Properties Matthews coefficient Solvent content 3.62 66.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.086 α = 90 b = 91.881 β = 90 c = 164.436 γ = 90
Symmetry Space Group I 2 2 2
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 PILATUS3 6M 2017-01-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.68 49.92 99.9 0.083 0.996 10.8 9 74443
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.68 1.71 97.8 1.713 0.515 1 8.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.68 49.92 69990 3789 99 0.19729 0.1963 0.21709 0.232 RANDOM 42.862
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] -0.33 -1.13 1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.465 r_dihedral_angle_4_deg 17.307 r_dihedral_angle_3_deg 12.359 r_dihedral_angle_1_deg 5.995 r_long_range_B_refined 5.62 r_long_range_B_other 5.493 r_mcangle_it 1.956 r_mcangle_other 1.955 r_scangle_other 1.859 r_angle_refined_deg 1.365
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.465 r_dihedral_angle_4_deg 17.307 r_dihedral_angle_3_deg 12.359 r_dihedral_angle_1_deg 5.995 r_long_range_B_refined 5.62 r_long_range_B_other 5.493 r_mcangle_it 1.956 r_mcangle_other 1.955 r_scangle_other 1.859 r_angle_refined_deg 1.365 r_mcbond_it 1.114 r_mcbond_other 1.114 r_scbond_it 1.096 r_scbond_other 1.096 r_angle_other_deg 0.908 r_chiral_restr 0.077 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.002 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 3023 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing