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Crystal structures of an activated YycF homologue, the essential response regulator from S.pneumoniae in complex with BeF3 and the effect of pH on BeF3 binding, possible phosphate in the active site
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.4 48.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.563 α = 90 b = 93.324 β = 90 c = 37.456 γ = 90
Symmetry Space Group C 2 2 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 MARRESEARCH 2003-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.0 ELETTRA 5.2R
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 (All) 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 1.65 58.22 14792 795 96.53 0.195 0.19459 0.19248 0.23593 0.2163 RANDOM 23.741
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] 2.98 -1.87 -1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.527 r_dihedral_angle_4_deg 18.714 r_dihedral_angle_3_deg 16.282 r_sphericity_free 10.618 r_dihedral_angle_1_deg 6.487 r_scangle_it 5.094 r_sphericity_bonded 4.572 r_scbond_it 3.751 r_mcangle_it 2.406 r_rigid_bond_restr 2.395
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.527 r_dihedral_angle_4_deg 18.714 r_dihedral_angle_3_deg 16.282 r_sphericity_free 10.618 r_dihedral_angle_1_deg 6.487 r_scangle_it 5.094 r_sphericity_bonded 4.572 r_scbond_it 3.751 r_mcangle_it 2.406 r_rigid_bond_restr 2.395 r_angle_refined_deg 1.912 r_mcbond_it 1.737 r_symmetry_hbond_refined 0.332 r_nbtor_refined 0.306 r_nbd_refined 0.23 r_symmetry_vdw_refined 0.221 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.122 r_metal_ion_refined 0.04 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 948 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling