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Conformational changes during monomer-to-dimer transition of Brucella suis VirB8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 298 0.1 M Tris/HCl pH 6.8, 18% PEG-MME 2000
Crystal Properties Matthews coefficient Solvent content 2.95 58.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.503 α = 90 b = 78.723 β = 111.56 c = 70.84 γ = 90
Symmetry Space Group P 1 21 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 CCD MARMOSAIC 300 mm CCD 2015-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97 CLSI 08ID-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 1.95 42.2 97 2.4 3.5 48835
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 1.95 42.2 46338 2497 96.93 0.19347 0.19091 0.24097 0.2428 RANDOM 47.119
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] -1.99 1.94 -3.63 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.03 r_dihedral_angle_4_deg 17.057 r_dihedral_angle_3_deg 15.789 r_long_range_B_refined 9.535 r_long_range_B_other 9.527 r_dihedral_angle_1_deg 7.289 r_scangle_other 7.031 r_mcangle_it 5.412 r_mcangle_other 5.411 r_scbond_it 4.727
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.03 r_dihedral_angle_4_deg 17.057 r_dihedral_angle_3_deg 15.789 r_long_range_B_refined 9.535 r_long_range_B_other 9.527 r_dihedral_angle_1_deg 7.289 r_scangle_other 7.031 r_mcangle_it 5.412 r_mcangle_other 5.411 r_scbond_it 4.727 r_scbond_other 4.717 r_mcbond_it 3.941 r_mcbond_other 3.935 r_angle_refined_deg 1.9 r_angle_other_deg 1.069 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 4153 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 88
Software Software Software Name Purpose REFMAC refinement