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Structure and functional properties of the Bacillus subtilis transcriptional repressor Rex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XCB PDB ENTRY 1XCB CHAIN F, C-TERMINAL DOMAIN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.1 RESERVOAR SOLUTION OF 20% W/V PEG6000, 0.2M NH4CL AND 0.1M HEPES PH 7.1
Crystal Properties Matthews coefficient Solvent content 2.57 52.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.46 α = 90 b = 53.52 β = 125.8 c = 86.24 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 CCD MARRESEARCH FOCUSING MIRRORS 2006-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 MAX II I911-3
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 2.1 20 99 0.08 12.8 3.7 31994 -3
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 2.1 93.4 0.47 2.8 3.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 1XCB CHAIN F, C-TERMINAL DOMAIN 2 19.46 30388 1605 99 0.196 0.194 0.1991 0.242 0.248 RANDOM 10.02
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] 0.84 1.33 -0.8 1.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.372 r_dihedral_angle_4_deg 17.99 r_dihedral_angle_3_deg 16.461 r_dihedral_angle_1_deg 7.469 r_scangle_it 2.714 r_scbond_it 1.973 r_angle_refined_deg 1.554 r_mcangle_it 1.193 r_mcbond_it 0.982 r_angle_other_deg 0.952
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.372 r_dihedral_angle_4_deg 17.99 r_dihedral_angle_3_deg 16.461 r_dihedral_angle_1_deg 7.469 r_scangle_it 2.714 r_scbond_it 1.973 r_angle_refined_deg 1.554 r_mcangle_it 1.193 r_mcbond_it 0.982 r_angle_other_deg 0.952 r_symmetry_vdw_other 0.274 r_symmetry_vdw_refined 0.223 r_nbd_refined 0.217 r_nbd_other 0.193 r_mcbond_other 0.184 r_symmetry_hbond_refined 0.182 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.173 r_nbtor_other 0.089 r_chiral_restr 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3101 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 62
Software Software Software Name Purpose XDS data reduction XSCALE data scaling MrBUMP phasing PHASER phasing REFMAC refinement