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Crystal structure of Bacillus subtilis GabR at 2.05 Angstroms resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 PEG 1000, PEG 400, ethyleneglycol, calcium acetate, Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.58 52.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.831 α = 90 b = 101.556 β = 90 c = 212.987 γ = 90
Symmetry Space Group P 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 ADSC QUANTUM 315r 2010-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
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 2.05 50 97.3 0.059 16.2 6.1 130131
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 2.05 2.09 95.6 0.58 5.4 6302
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.05 47.67 123479 6564 97.3 0.23381 0.23111 0.2304 0.28442 0.2831 RANDOM 52.039
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] 0.59 -0.4 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.525 r_dihedral_angle_4_deg 20.283 r_dihedral_angle_3_deg 17.522 r_long_range_B_refined 8.515 r_dihedral_angle_1_deg 5.941 r_mcangle_it 4.902 r_scbond_it 4.044 r_mcbond_it 3.425 r_angle_refined_deg 1.449 r_chiral_restr 0.098
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.525 r_dihedral_angle_4_deg 20.283 r_dihedral_angle_3_deg 17.522 r_long_range_B_refined 8.515 r_dihedral_angle_1_deg 5.941 r_mcangle_it 4.902 r_scbond_it 4.044 r_mcbond_it 3.425 r_angle_refined_deg 1.449 r_chiral_restr 0.098 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other 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 13936 Nucleic Acid Atoms Solvent Atoms 563 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data reduction SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction RESOLVE model building REFMAC refinement SOLVE model building REFMAC5 refinement HKL data scaling