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Crystal structure of CbnR, a LysR family transcriptional regulator
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 Tris/HCl, MgSO4, NaCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.44 49.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.22 α = 90 b = 100.856 β = 90 c = 87.735 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 111 CCD ADSC QUANTUM 4 2001-10-01 M MAD 2 1 x-ray 105 CCD ADSC QUANTUM 4 2002-01-30 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL40B2 0.9796, 0.9798, 0.9721, 0.9862 SPring-8 BL40B2 2 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.978 Photon Factory BL-6A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.2 35.6 100 0.053 0.053 9.4 7.2 32808 32808
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.2 2.32 100 0.235 0.265 0.265 7.3 4689
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 (All) 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 MAD THROUGHOUT 2.2 87.71 31092 31080 1676 99.9 0.21907 0.21907 0.21763 0.2191 0.24527 0.2473 RANDOM 16.122
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] -0.91 -2.05 2.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.427 r_dihedral_angle_1_deg 4.872 r_scangle_it 2.593 r_scbond_it 1.521 r_angle_refined_deg 1.334 r_mcangle_it 1.087 r_angle_other_deg 0.725 r_mcbond_it 0.58 r_symmetry_hbond_refined 0.455 r_nbd_refined 0.354
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.427 r_dihedral_angle_1_deg 4.872 r_scangle_it 2.593 r_scbond_it 1.521 r_angle_refined_deg 1.334 r_mcangle_it 1.087 r_angle_other_deg 0.725 r_mcbond_it 0.58 r_symmetry_hbond_refined 0.455 r_nbd_refined 0.354 r_nbd_other 0.2 r_symmetry_vdw_other 0.196 r_xyhbond_nbd_refined 0.173 r_symmetry_vdw_refined 0.109 r_chiral_restr 0.078 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_xyhbond_nbd_other 0.002 r_bond_other_d 0.001 r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4436 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SHARP phasing REFMAC refinement CCP4 data scaling