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Structure of H200N variant of Homoprotocatechuate 2,3-Dioxygenase from B.fuscum in complex with 4-sulfonyl catechol at 1.50 Ang resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OJT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 14% PEG6000, 0.1M calcium acetate, 0.1M Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.37 48.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.183 α = 90 b = 149.939 β = 90 c = 95.76 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 2M 2011-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9173 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.5 29.49 98.6 0.09 0.1 0.044 11.6 4.9 248661 248661
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.58 95.7 0.796 0.796 0.391 1 4.9 34928
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 3OJT 1.5 29.49 236208 12394 98.41 0.1181 0.1158 0.1165 0.1621 0.1623 RANDOM 17.123
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] 0.07 -0.18 0.11
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 30.805 r_sphericity_bonded 9.12 r_rigid_bond_restr 2.641 r_mcangle_it 2.069 r_mcbond_it 1.773 r_mcbond_other 1.771 r_angle_refined_deg 1.407 r_angle_other_deg 0.82 r_chiral_restr 0.093 r_bond_refined_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 30.805 r_sphericity_bonded 9.12 r_rigid_bond_restr 2.641 r_mcangle_it 2.069 r_mcbond_it 1.773 r_mcbond_other 1.771 r_angle_refined_deg 1.407 r_angle_other_deg 0.82 r_chiral_restr 0.093 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11524 Nucleic Acid Atoms Solvent Atoms 1758 Heterogen Atoms 142
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction XDS data reduction MOLREP phasing