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Crystal structure of Pistol, a class of self-cleaving ribozyme
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298.15 6% MPD, 0.02 M magnesium chloride, 0.02 M cobalt hexammine, 0.04 M sodium cacodylate
Crystal Properties Matthews coefficient Solvent content 2.76 55.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.19 α = 90 b = 85.19 β = 90 c = 256.54 γ = 90
Symmetry Space Group I 41 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 77.15 PIXEL DECTRIS PILATUS 6M-F 2016-06-16 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 1.8445, 1.0163,1.8450 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.971 81.27 99.8 11.87 17.36 10223 10205
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.971
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 MAD THROUGHOUT 2.97 81.27 9769 523 99.33 0.19834 0.19559 0.1954 0.25719 0.2535 RANDOM 123.508
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] 0.73 0.73 -1.47
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 15.003 r_long_range_B_other 14.804 r_scangle_other 10.809 r_scbond_it 7.065 r_scbond_other 7.056 r_angle_refined_deg 2.212 r_angle_other_deg 1.721 r_chiral_restr 0.135 r_gen_planes_refined 0.014 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 15.003 r_long_range_B_other 14.804 r_scangle_other 10.809 r_scbond_it 7.065 r_scbond_other 7.056 r_angle_refined_deg 2.212 r_angle_other_deg 1.721 r_chiral_restr 0.135 r_gen_planes_refined 0.014 r_bond_refined_d 0.01 r_bond_other_d 0.005 r_gen_planes_other 0.003 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_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 Nucleic Acid Atoms 2786 Solvent Atoms 15 Heterogen Atoms 165
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling SHELXDE phasing