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E.coli QueD, SeMet protein, 2A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 295 5% MPD, 50 mM sodium acetate, 40 mM CaCl2, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.88 57.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.08 α = 90 b = 111.76 β = 90 c = 161.44 γ = 90
Symmetry Space Group I 2 2 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 2009-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.98 SSRL BL9-2
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 1.99 55.8 99.98 0.072 10.4 4.9 66155 66142 32.7
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 1.99 2.1 100 0.553 2.2 4.7 9592
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.99 55.8 62782 62782 3360 99.83 0.2041 0.20312 0.212 0.22219 0.2329 RANDOM 39.506
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] 2.55 -2.78 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.397 r_dihedral_angle_4_deg 13.886 r_dihedral_angle_3_deg 12.596 r_dihedral_angle_1_deg 5.799 r_long_range_B_refined 3.404 r_long_range_B_other 3.404 r_scangle_other 1.88 r_mcangle_it 1.571 r_mcangle_other 1.571 r_scbond_it 1.233
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.397 r_dihedral_angle_4_deg 13.886 r_dihedral_angle_3_deg 12.596 r_dihedral_angle_1_deg 5.799 r_long_range_B_refined 3.404 r_long_range_B_other 3.404 r_scangle_other 1.88 r_mcangle_it 1.571 r_mcangle_other 1.571 r_scbond_it 1.233 r_scbond_other 1.232 r_angle_refined_deg 1.145 r_mcbond_it 0.96 r_mcbond_other 0.96 r_angle_other_deg 0.716 r_chiral_restr 0.069 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5690 Nucleic Acid Atoms Solvent Atoms 127 Heterogen Atoms 9
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement Crystal data reduction SCALA data scaling