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Crystal structure of O-succinylbenzoate synthase from Thermosynechococcus elongatus BP-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 295 20% PEG8000, 0.1M phosphate-citrate, pH 4.2, 0.2M NaCl, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.3 46.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.641 α = 90 b = 113.498 β = 90 c = 148.155 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 100 CCD MAR CCD 165 mm 2007-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97969 APS 31-ID
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 1.42 20 95.1 0.058 10.7 6.7 116450
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 1.42 1.44 82.2 0.627 5.6 5013
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.42 19.7 58225 3115 0.17909 0.17755 0.1765 0.20706 0.2053 RANDOM 22.743
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] 0.03 -0.05 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.512 r_dihedral_angle_4_deg 17.021 r_dihedral_angle_3_deg 12.31 r_dihedral_angle_1_deg 5.626 r_scangle_it 3.962 r_scbond_it 2.509 r_mcangle_it 1.758 r_angle_refined_deg 1.495 r_mcbond_it 1.015 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.512 r_dihedral_angle_4_deg 17.021 r_dihedral_angle_3_deg 12.31 r_dihedral_angle_1_deg 5.626 r_scangle_it 3.962 r_scbond_it 2.509 r_mcangle_it 1.758 r_angle_refined_deg 1.495 r_mcbond_it 1.015 r_nbtor_refined 0.313 r_symmetry_hbond_refined 0.211 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.17 r_symmetry_vdw_refined 0.148 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2555 Nucleic Acid Atoms Solvent Atoms 382 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement SHELX refinement DENZO data reduction PDB_EXTRACT data extraction MAR345 data collection HKL-2000 data reduction SCALEPACK data scaling SHELXS phasing