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Structure of a Bacterial Ribonuclease P Holoenzyme in Complex with tRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A2E 2A2E, 2A64, 1NZ0, 1EHZ experimental model PDB 2A64 2A2E, 2A64, 1NZ0, 1EHZ experimental model PDB 1NZ0 2A2E, 2A64, 1NZ0, 1EHZ experimental model PDB 1EHZ 2A2E, 2A64, 1NZ0, 1EHZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 1.8M Lithium sulfate, 0.05M sodium cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 4.95 75.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 169.29 α = 90 b = 169.29 β = 90 c = 184.99 γ = 120
Symmetry Space Group P 31 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-225 MIRRORS 2009-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 3.8 30 88.5 0.079 0.096 12.2 5 27116 3 129.78
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3.8 3.97 22.3 0.359 0.432 3.2 4.5
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 MIRAS THROUGHOUT 2A2E, 2A64, 1NZ0, 1EHZ 3.8 28.97 27090 1368 0.251 0.25 0.3032 0.272 0.3272 RANDOM 80.04
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] -23.4702 -23.4702 46.9404
RMS Deviations Key Refinement Restraint Deviation t_angle_deg 1.24 t_bond_d 0.007 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 973 Nucleic Acid Atoms 9168 Solvent Atoms Heterogen Atoms 14
Software Software Software Name Purpose XDS data scaling TNT refinement BUSTER refinement XDS data reduction SCALA data scaling TNT phasing