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Crystal structure of a RNA binding domain of THO complex subunit 4 protein (THOC4) from Homo sapiens at 2.54 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 25.0% Glycerol, 0.6M di-sodium hydrogen phosphate, 0.6M potassium dihydrogen phosphate, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.7 66.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.152 α = 90 b = 101.152 β = 90 c = 101.152 γ = 90
Symmetry Space Group P 41 3 2
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 ADSC QUANTUM 315 KOHZU: Double Crystal Si(111) 2011-09-09 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.9537,0.9796,0.9794 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.54 29.2 99.9 0.086 16.6 9.8 6271 6271
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.54 2.61 100 0.011 1.136 2.2 10.3 447
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 2.54 29.2 6245 289 99.87 0.1819 0.1812 0.1828 0.1954 0.202 RANDOM 64.6075
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 r_dihedral_angle_2_deg 40.277 r_dihedral_angle_3_deg 18.993 r_dihedral_angle_4_deg 18.689 r_torsion_it 9.026 r_dihedral_angle_1_deg 5.958 r_angle_it 4.861 r_angle_others 2.978 r_bond_it 2.945 r_angle_refined_deg 1.958 r_angle_other_deg 0.913
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.277 r_dihedral_angle_3_deg 18.993 r_dihedral_angle_4_deg 18.689 r_torsion_it 9.026 r_dihedral_angle_1_deg 5.958 r_angle_it 4.861 r_angle_others 2.978 r_bond_it 2.945 r_angle_refined_deg 1.958 r_angle_other_deg 0.913 r_bond_other 0.65 r_chiral_restr 0.083 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 632 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 10
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SOLVE phasing SCALA data scaling REFMAC refinement MOSFLM data reduction