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Propionibacterium shermanii transcarboxylase 5S subunit bound to 2-ketobutyric acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RQB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 PEG 4000, Tris , pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.32 46.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.172 α = 90 b = 146.134 β = 90 c = 78.701 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 95 IMAGE PLATE RIGAKU RAXIS IV 2003-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R
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 2 30 85.5 0.084 22 7.6 37787 32291 18.6
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) 2 2.07 71.8 0.233 4.5
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 Isomorphous replacement THROUGHOUT 1RQB 2 27.29 37787 32291 1546 85.4 0.1754 0.1754 0.173 0.1735 0.205 0.2044 RANDOM 35.1
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] -2.57 1.82 0.75
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23 c_scangle_it 4.44 c_scbond_it 3.31 c_mcangle_it 2.85 c_mcbond_it 2.15 c_angle_deg 1.3 c_improper_angle_d 1.01 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3671 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms 8
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling CNS phasing