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Crystal Structure of 4-Chlorocatechol Dioxygenase from Rhodococcus opacus 1CP in complex with pyrogallol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 9 296 ammonium sulphate, NaCl, TRIS, pH 9.0, vapor diffusion, temperature 296K
Crystal Properties Matthews coefficient Solvent content 3.13 60.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.65 α = 90 b = 89.65 β = 90 c = 312.31 γ = 120
Symmetry Space Group P 63 2 2
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 2009-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.000 ELETTRA 5.2R
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.6 32.97 82.8 0.103 0.103 9.08 3.18 19844 -3 72.3
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 2.6 2.67 74.8 0.15 6.8
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 FOURIER SYNTHESIS THROUGHOUT 2.6 10 19423 388 82.94 0.2271 0.2254 0.2287 0.3162 0.3153 RANDOM 65.8616
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] -3.19 -1.6 -3.19 4.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.172 r_dihedral_angle_3_deg 21.688 r_dihedral_angle_4_deg 19.846 r_dihedral_angle_1_deg 8.042 r_scangle_it 3.453 r_scbond_it 2.118 r_angle_refined_deg 1.939 r_mcangle_it 1.49 r_mcbond_it 0.805 r_chiral_restr 0.129
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.172 r_dihedral_angle_3_deg 21.688 r_dihedral_angle_4_deg 19.846 r_dihedral_angle_1_deg 8.042 r_scangle_it 3.453 r_scbond_it 2.118 r_angle_refined_deg 1.939 r_mcangle_it 1.49 r_mcbond_it 0.805 r_chiral_restr 0.129 r_bond_refined_d 0.018 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4041 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 93
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection XDS data reduction