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Universal stress protein UspA from Lactobacillus plantarum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ZSK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 289 0.2 M calcium acetate, 0.1 M Tris buffer, 20% PEG-3000, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.28 46.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.015 α = 102.13 b = 56.187 β = 100.53 c = 109.144 γ = 90.36
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 SBC-3 2008-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9792 APS 19-BM
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 1.9 32.5 92.9 0.073 8.5 6.2 81926 81926 35
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 1.9 1.93 62 0.561 2.85 6.1 2729
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 2ZSK 1.9 32.5 81918 81918 4103 92.69 0.171 0.171 0.1684 0.1703 0.2207 0.222 RANDOM 29.2979
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] -0.95 -0.34 0.73 -0.72 -1.67 1.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.218 r_dihedral_angle_4_deg 20.452 r_dihedral_angle_3_deg 13.237 r_dihedral_angle_1_deg 6.22 r_scangle_it 3.37 r_scbond_it 2.186 r_angle_refined_deg 1.662 r_mcangle_it 1.344 r_angle_other_deg 0.955 r_mcbond_it 0.798
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.218 r_dihedral_angle_4_deg 20.452 r_dihedral_angle_3_deg 13.237 r_dihedral_angle_1_deg 6.22 r_scangle_it 3.37 r_scbond_it 2.186 r_angle_refined_deg 1.662 r_mcangle_it 1.344 r_angle_other_deg 0.955 r_mcbond_it 0.798 r_mcbond_other 0.256 r_chiral_restr 0.093 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8800 Nucleic Acid Atoms Solvent Atoms 886 Heterogen Atoms 308
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-2000 data reduction HKL-3000 data scaling MOLREP phasing HKL-3000 phasing