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Crystal structure of Suppressor of Fused d20
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4KM8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 287 16% PEG 3350, 0.1M Ammonium Tartrate, vapor diffusion, hanging drop, temperature 287K
Crystal Properties Matthews coefficient Solvent content 2.48 50.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.634 α = 90 b = 122.329 β = 90.41 c = 118.751 γ = 90
Symmetry Space Group C 1 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 2012-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 1.000 SSRF BL17U
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 3.04 118.75 99.4 0.128 13.2 5.6 19786
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 3.1 3.21 99.8 0.489 5.7 1970
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 4KM8 3.04 50 19786 1010 97.54 0.2266 0.2238 0.277 0.3052 RANDOM 86.3
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] 1.27 1.14 7.27 -8.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.539 r_dihedral_angle_4_deg 16.25 r_dihedral_angle_3_deg 15.689 r_dihedral_angle_1_deg 4.907 r_mcangle_it 2.338 r_mcbond_it 1.582 r_angle_refined_deg 0.974 r_scangle_it 0.897 r_scbond_it 0.494 r_chiral_restr 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.539 r_dihedral_angle_4_deg 16.25 r_dihedral_angle_3_deg 15.689 r_dihedral_angle_1_deg 4.907 r_mcangle_it 2.338 r_mcbond_it 1.582 r_angle_refined_deg 0.974 r_scangle_it 0.897 r_scbond_it 0.494 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6063 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction