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Crystal structure of a conserved motif in human TDRD7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 297 0.1M NaOAc, 2.2-2.4M NaCl, VAPOR DIFFUSION, SITTING DROP, temperature 297K, pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.07 40.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.788 α = 90 b = 99.788 β = 90 c = 99.788 γ = 90
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 Si 111 2010-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97934 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.8 50 100 0.076 0.076 47.9 22.3 15460 15460 18.9
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 1.8 1.86 100 0.414 8.75 21.6 1500
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 SAD THROUGHOUT 1.8 50 15460 14272 1180 99.95 0.17794 0.17794 0.17364 0.1725 0.23024 0.2303 RANDOM 20.087
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 20.03 r_dihedral_angle_4_deg 17.878 r_dihedral_angle_3_deg 12.636 r_dihedral_angle_1_deg 6.174 r_scangle_it 5.51 r_scbond_it 3.633 r_mcangle_it 2.784 r_mcbond_it 1.629 r_angle_refined_deg 1.207 r_chiral_restr 0.111
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.03 r_dihedral_angle_4_deg 17.878 r_dihedral_angle_3_deg 12.636 r_dihedral_angle_1_deg 6.174 r_scangle_it 5.51 r_scbond_it 3.633 r_mcangle_it 2.784 r_mcbond_it 1.629 r_angle_refined_deg 1.207 r_chiral_restr 0.111 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1175 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 11
Software Software Software Name Purpose SBC-Collect data collection SOLVE phasing REFMAC refinement Coot model building HKL-3000 data reduction HKL-3000 data scaling