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Crystal structure of a putative transcriptional regulator from Listeria monocytogenes EGD-e
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 1.1 M Ammonium Tartrate, 25 % Sucrose, 10 % PEG 400, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.43 64.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.31 α = 90 b = 103.93 β = 90 c = 112.81 γ = 90
Symmetry Space Group I 21 21 21
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 MARMOSAIC 225 mm CCD beryllium lenses 2014-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 2.09 56.4 99.4 0.04 27.1 7.4 30178 30178 -3 37.9
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 2.09 2.14 98.1 0.658 3 7.3 2187
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 SAD THROUGHOUT 2.09 56.4 28664 28664 1514 99.29 0.1694 0.16783 0.1821 0.19919 0.2079 RANDOM 54.718
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] 3.22 -0.56 -2.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.971 r_dihedral_angle_4_deg 19.215 r_dihedral_angle_3_deg 15.25 r_long_range_B_refined 8.513 r_long_range_B_other 8.512 r_dihedral_angle_1_deg 6.656 r_scangle_other 6.384 r_scbond_it 4.19 r_scbond_other 4.19 r_mcangle_other 4.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.971 r_dihedral_angle_4_deg 19.215 r_dihedral_angle_3_deg 15.25 r_long_range_B_refined 8.513 r_long_range_B_other 8.512 r_dihedral_angle_1_deg 6.656 r_scangle_other 6.384 r_scbond_it 4.19 r_scbond_other 4.19 r_mcangle_other 4.101 r_mcangle_it 4.098 r_mcbond_it 2.753 r_mcbond_other 2.744 r_angle_refined_deg 1.647 r_angle_other_deg 0.851 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 2483 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 29
Software Software Software Name Purpose Blu-Ice data collection PHENIX model building REFMAC refinement XDS data reduction XDS data scaling PHENIX phasing