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Structural studies of CdsD, a structural protein of the Type III secretion system (TTSS) of Chlamydia trachomatis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 50 mM MES; pH 6.0 - 3 % PEG4000 - 15 % 2-propanol - 50 mM MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.01 59.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.6 α = 90 b = 23.91 β = 104.95 c = 118.65 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 PIXEL DECTRIS PILATUS 2M 2013-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.26 28.66 97.6 14312 13969 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.26 2.39 92.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 SAD THROUGHOUT 2.26 28.66 2 14312 13267 699 98.03 0.19696 0.19462 0.24133 0.2304 RANDOM 38.091
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] 3.5 -0.68 -1.26 -1.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.569 r_dihedral_angle_4_deg 17.013 r_dihedral_angle_3_deg 15.524 r_long_range_B_refined 8.504 r_long_range_B_other 8.501 r_dihedral_angle_1_deg 6.966 r_scangle_other 6.098 r_mcangle_it 4.472 r_mcangle_other 4.47 r_scbond_it 3.768
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.569 r_dihedral_angle_4_deg 17.013 r_dihedral_angle_3_deg 15.524 r_long_range_B_refined 8.504 r_long_range_B_other 8.501 r_dihedral_angle_1_deg 6.966 r_scangle_other 6.098 r_mcangle_it 4.472 r_mcangle_other 4.47 r_scbond_it 3.768 r_scbond_other 3.758 r_mcbond_it 3.047 r_mcbond_other 3.037 r_angle_refined_deg 1.766 r_angle_other_deg 0.885 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1655 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 15
Software Software Software Name Purpose GDA data collection PHENIX model building REFMAC refinement XDS data reduction XDS data scaling PHENIX phasing