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Escherichia coli PriB E39A variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TXY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 8% polyethylene glycol 8000, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.15 42.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.978 α = 90 b = 60.685 β = 90 c = 66.273 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 MAR CCD 165 mm M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 2.25 20 92.6 0.083 0.083 11.5 5.2 10045 9302 66
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 2.25 2.33 75.1 0.438 0.438 2.7 3.4 725
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1TXY 2.25 19.95 10045 9269 425 92.8 0.248 0.248 0.247 0.2446 0.276 0.2695 RANDOM 65.987
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] -0.41 -0.3 0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.549 r_dihedral_angle_4_deg 20.414 r_dihedral_angle_3_deg 17.25 r_dihedral_angle_1_deg 5.801 r_scangle_it 1.95 r_scbond_it 1.232 r_angle_refined_deg 1.175 r_mcangle_it 0.839 r_mcbond_it 0.514 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.549 r_dihedral_angle_4_deg 20.414 r_dihedral_angle_3_deg 17.25 r_dihedral_angle_1_deg 5.801 r_scangle_it 1.95 r_scbond_it 1.232 r_angle_refined_deg 1.175 r_mcangle_it 0.839 r_mcbond_it 0.514 r_nbtor_refined 0.294 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.172 r_symmetry_hbond_refined 0.148 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1472 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling