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Crystal structure of Escherichia coli SdiA in the space group P6522
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 287 0.1M 4-(2-Hydroxyethyl)piperazine-1-ethanesulfonic acid, 0.2M Lithium sulfate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 5.27 76.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.474 α = 90 b = 130.474 β = 90 c = 125.234 γ = 120
Symmetry Space Group P 65 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 CCD RAYONIX MX225HE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
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 2.7 30 99.8 0.058 41.9 10.1 17821 17785
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 100 0.398 5.5 10.2 1726
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 2.7 30 17821 16858 902 99.5 0.23201 0.22999 0.2264 0.27121 0.2696 RANDOM 56.035
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] 0.9 0.45 0.9 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.631 r_dihedral_angle_4_deg 23.754 r_dihedral_angle_3_deg 20.735 r_dihedral_angle_1_deg 6.099 r_scangle_it 3.079 r_scbond_it 1.905 r_angle_refined_deg 1.512 r_mcangle_it 1.4 r_mcbond_it 0.784 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.631 r_dihedral_angle_4_deg 23.754 r_dihedral_angle_3_deg 20.735 r_dihedral_angle_1_deg 6.099 r_scangle_it 3.079 r_scbond_it 1.905 r_angle_refined_deg 1.512 r_mcangle_it 1.4 r_mcbond_it 0.784 r_nbtor_refined 0.316 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.194 r_symmetry_hbond_refined 0.186 r_chiral_restr 0.115 r_xyhbond_nbd_refined 0.112 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1958 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 6
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling