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Crystal structure of the tyrosine-regulated 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase from Saccharomyces cerevisiae complexed with phosphoenolpyruvate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QR7 CHAINS A AND B OF PDB ENTRY 1QR7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 pH 9.00
Crystal Properties Matthews coefficient Solvent content 2.22 44.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82 α = 65.6 b = 93.8 β = 85.6 c = 104.5 γ = 75.4
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 1998-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 40 96.3 0.037 2.01 210365 -3
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 CHAINS A AND B OF PDB ENTRY 1QR7 1.9 40 198354 9891 91.8 0.2079 0.2079 0.2054 0.2612 0.2585 THIN SHELLS
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] -5.75 3.627 1.667 -1.712 -6.502 7.463
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.66387 c_scangle_it 4.613 c_mcangle_it 3.388 c_scbond_it 2.96 c_mcbond_it 2.05 c_angle_deg 1.30021 c_improper_angle_d 0.78448 c_bond_d 0.0061 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.66387 c_scangle_it 4.613 c_mcangle_it 3.388 c_scbond_it 2.96 c_mcbond_it 2.05 c_angle_deg 1.30021 c_improper_angle_d 0.78448 c_bond_d 0.0061 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20624 Nucleic Acid Atoms Solvent Atoms 1251 Heterogen Atoms 80
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling EPMR phasing