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PrfA-G145S, a constitutive active mutant of the Transcriptional Regulator In L.monocytogenes
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OMI PDB ENTRY 1OMI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.9 12 % (W/V) PEG 8000 100 MM NA-MES PH 6.9 300 MM NA-ACETATE
Crystal Properties Matthews coefficient Solvent content 2.54 51.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.247 α = 90 b = 100.243 β = 90.33 c = 189.563 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 MIRRORS 2003-11-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 MPG/DESY, HAMBURG BW6
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 2.3 50 92.3 13 2 89772 2
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 2.3 2.38 94.1 0.03 2.5 1.8
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 1OMI 2.3 182.57 88472 4648 95.6 0.199 0.195 0.2103 0.268 0.2496 RANDOM 47.74
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] 4.5 -0.04 -2.58 -1.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.769 r_dihedral_angle_4_deg 19.139 r_dihedral_angle_3_deg 18.699 r_dihedral_angle_1_deg 7.159 r_mcangle_it 3.302 r_scangle_it 2.912 r_mcbond_it 2.254 r_scbond_it 1.968 r_angle_refined_deg 1.739 r_angle_other_deg 0.908
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.769 r_dihedral_angle_4_deg 19.139 r_dihedral_angle_3_deg 18.699 r_dihedral_angle_1_deg 7.159 r_mcangle_it 3.302 r_scangle_it 2.912 r_mcbond_it 2.254 r_scbond_it 1.968 r_angle_refined_deg 1.739 r_angle_other_deg 0.908 r_mcbond_other 0.54 r_symmetry_vdw_refined 0.22 r_nbd_refined 0.214 r_symmetry_hbond_refined 0.204 r_symmetry_vdw_other 0.197 r_xyhbond_nbd_refined 0.191 r_nbtor_refined 0.185 r_nbd_other 0.176 r_chiral_restr 0.101 r_nbtor_other 0.089 r_xyhbond_nbd_other 0.057 r_bond_refined_d 0.019 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 15239 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling EPMR phasing