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DyPB from Rhodococcus jostii RHA1, crystal form 1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 3.5 M sodium formate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.6 65.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.379 α = 90 b = 132.379 β = 90 c = 160.211 γ = 120
Symmetry Space Group P 32 2 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 CCD RAYONIX MX-300 Vertical Focusing Mirror: ultra-low expansion (ULE) titanium siliicate flat mirror with Pt, Uncoated, and Pd strips 2009-11-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1
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 2.25 48.41 100 0.073 14.2 5.7 88432 77338 47.1
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 2.25 2.37 100 0.577 2.6 4.5 11152
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 2.25 48.41 77241 3877 99.9 0.1934 0.1921 0.218 0.2147 RANDOM 41.7415
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] -0.96 -0.48 -0.96 1.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.201 r_dihedral_angle_4_deg 20.707 r_dihedral_angle_3_deg 14.944 r_dihedral_angle_1_deg 5.752 r_scangle_it 3.153 r_scbond_it 1.966 r_mcangle_it 1.405 r_angle_refined_deg 1.347 r_mcbond_it 0.751 r_chiral_restr 0.087
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.201 r_dihedral_angle_4_deg 20.707 r_dihedral_angle_3_deg 14.944 r_dihedral_angle_1_deg 5.752 r_scangle_it 3.153 r_scbond_it 1.966 r_mcangle_it 1.405 r_angle_refined_deg 1.347 r_mcbond_it 0.751 r_chiral_restr 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7015 Nucleic Acid Atoms Solvent Atoms 451 Heterogen Atoms 150
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MXDX data collection XDS data reduction