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Crystal structure of human ribonuclease P/MRP proteins Rpp20/Rpp25
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291.15 100 mM potassium formate, pH 7.5, 300 mM magnesium sulfate, 4.5% PEG 300, 4.5% PEG 400, 4.5% PEG 1000, 4.5% PEG 4000, and 4.5% PEG 8000
Crystal Properties Matthews coefficient Solvent content 3.42 63.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 182.19 α = 90 b = 182.19 β = 90 c = 182.19 γ = 90
Symmetry Space Group I 4 3 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 CCD MARMOSAIC 225 mm CCD 2015-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.25 48.69 100 0.083 0.087 0.028 0.999 16.4 9.7 24742
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.32 100 0.495 0.523 0.165 0.924 4.7 9.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIRAS THROUGHOUT 2.25 48.69 23502 1211 99.93 0.2143 0.2134 0.2197 0.2322 0.235 RANDOM 54.096
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.779 r_dihedral_angle_4_deg 13.925 r_dihedral_angle_3_deg 13.032 r_dihedral_angle_1_deg 5.477 r_angle_refined_deg 1.384 r_angle_other_deg 0.866 r_chiral_restr 0.076 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.779 r_dihedral_angle_4_deg 13.925 r_dihedral_angle_3_deg 13.032 r_dihedral_angle_1_deg 5.477 r_angle_refined_deg 1.384 r_angle_other_deg 0.866 r_chiral_restr 0.076 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1746 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling autoSHARP phasing BUCCANEER model building PDB_EXTRACT data extraction