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Group I self-splicing intron P4-P6 domain mutant G134A/U185AA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GID
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 MPD, sodium cacodylate, spermine
Crystal Properties Matthews coefficient Solvent content 3.57 65.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.65 α = 90 b = 130.88 β = 90 c = 146.43 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 PIXEL DECTRIS PILATUS 6M-F 2016-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.979300 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 3.95 66.2 99.5 15.6 12.9 13327 183.727103127
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1gid 3.95427131486 66.1418356486 1.36170210068 13327 1330 99.2996050965 0.247275138779 0.245545785742 0.2429 0.26551364679 0.2639 182.687238258
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 f_dihedral_angle_d 13.8813729595 f_angle_d 0.500356517286 f_chiral_restr 0.0443901880062 f_bond_d 0.00331178846999 f_plane_restr 0.00287037724198
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 6812 Solvent Atoms 1 Heterogen Atoms 9
Software Software Software Name Purpose PHENIX refinement XDS data reduction XSCALE data scaling PHENIX phasing