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On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 283 0.1M Hepes, 20% PEG 6000, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 283K
Crystal Properties Matthews coefficient Solvent content 1.95 36.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.347 α = 90 b = 77.53 β = 90 c = 114.31 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 CCD RAYONIX MX300HE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 1.0 SPring-8 BL44XU
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 2.79 64.16 99.3 0.143 13.4 5.9 15606 15606
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 2.8 2.9 97.7 0.903 1.54 5.5
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 2.79 50 14767 827 98.48 0.27321 0.2707 0.31757 0.2584 RANDOM 60.468
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] -0.02 0.05 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.609 r_dihedral_angle_3_deg 17.54 r_dihedral_angle_4_deg 16.848 r_dihedral_angle_1_deg 5.338 r_long_range_B_refined 5.025 r_long_range_B_other 5.018 r_mcangle_it 2.966 r_mcangle_other 2.965 r_scangle_other 2.861 r_mcbond_it 1.739
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.609 r_dihedral_angle_3_deg 17.54 r_dihedral_angle_4_deg 16.848 r_dihedral_angle_1_deg 5.338 r_long_range_B_refined 5.025 r_long_range_B_other 5.018 r_mcangle_it 2.966 r_mcangle_other 2.965 r_scangle_other 2.861 r_mcbond_it 1.739 r_mcbond_other 1.737 r_scbond_it 1.627 r_scbond_other 1.627 r_angle_refined_deg 1.025 r_angle_other_deg 0.863 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_bond_other_d 0.004 r_gen_planes_refined 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5029 Nucleic Acid Atoms Solvent Atoms 34 Heterogen Atoms
Software Software Software Name Purpose MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling