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Crystal structure of Xanthomonas campestris OleA E117D
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ROW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 292 14% PEG 8000, 100 mM potassium phosphate dibasic, 100 mM sodium citrate pH 4.2
Crystal Properties Matthews coefficient Solvent content 2.4 48.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.876 α = 90 b = 85.409 β = 90 c = 102.794 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 ADSC QUANTUM 210r 2017-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 1.02235 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.84 50 100 0.088 0.092 0.035 11.7 7.3 63324 23.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.84 1.87 100 0.975 0.4 0.736 6.9
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 FOURIER SYNTHESIS THROUGHOUT 3ROW 1.84 50 60084 3170 99.93 0.1602 0.1582 0.1714 0.198 0.2082 RANDOM 28.939
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] 0.86 -1.06 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.868 r_dihedral_angle_4_deg 21.132 r_dihedral_angle_3_deg 15.832 r_dihedral_angle_1_deg 6.643 r_angle_refined_deg 2.448 r_angle_other_deg 1.226 r_chiral_restr 0.17 r_bond_refined_d 0.027 r_gen_planes_refined 0.013 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.868 r_dihedral_angle_4_deg 21.132 r_dihedral_angle_3_deg 15.832 r_dihedral_angle_1_deg 6.643 r_angle_refined_deg 2.448 r_angle_other_deg 1.226 r_chiral_restr 0.17 r_bond_refined_d 0.027 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5093 Nucleic Acid Atoms Solvent Atoms 226 Heterogen Atoms 29
Software Software Software Name Purpose HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing HKL data scaling HKL-2000 data reduction