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Structure of Editosome protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K7U PDB entry 3K7U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 0.05 M ammonium sulfate, 0.05M sodium acetate trihydrate, 30% w/v PEG 2000 MME, 0.2 M sodium thiocyanate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.17 43.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.653 α = 90 b = 105.912 β = 90 c = 40.58 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M M0 mirror: toroidal SiC M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.99990 ALS 8.2.1
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 1.97 105.91 99.5 0.088 16.366 4.7 31254 -3
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 1.97 2.03 95.3 0.39 3.333 4.7 1496
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 3K7U 1.97 50 31254 1587 97.9 0.189 0.1868 0.2288 0.2467 RANDOM 33.9452
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] 1.61 -0.54 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.506 r_sphericity_bonded 14.938 r_dihedral_angle_4_deg 13.807 r_dihedral_angle_3_deg 12.736 r_dihedral_angle_1_deg 5.527 r_rigid_bond_restr 2.442 r_angle_refined_deg 1.026 r_chiral_restr 0.064 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3271 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction