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Structure of H200Q variant of Homoprotocatechuate 2,3-Dioxygenase from B.fuscum in complex with 4-sulfonyl catechol at 1.42 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 6.5 293 13% PEG6000, 0.1M calcium chloride, 0.1M Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.43 49.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.568 α = 90 b = 151.99 β = 90 c = 96.356 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 CCD MARMOSAIC 225 mm CCD 2008-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000 SLS X06DA
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 1.42 47.952 98.4 0.073 0.082 0.038 11.8 4.5 299060 299060
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 1.42 1.5 96.6 0.767 0.767 0.41 1 4.3 42540
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 1.42 47.95 284088 14907 98.26 0.1256 0.1238 0.124 0.1599 0.1595 RANDOM 17.335
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] 0.05 -0.11 0.06
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 27.706 r_sphericity_bonded 8.627 r_rigid_bond_restr 2.699 r_mcangle_it 1.914 r_mcbond_it 1.614 r_mcbond_other 1.612 r_angle_refined_deg 1.379 r_angle_other_deg 0.802 r_chiral_restr 0.089 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 27.706 r_sphericity_bonded 8.627 r_rigid_bond_restr 2.699 r_mcangle_it 1.914 r_mcbond_it 1.614 r_mcbond_other 1.612 r_angle_refined_deg 1.379 r_angle_other_deg 0.802 r_chiral_restr 0.089 r_bond_refined_d 0.01 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 11579 Nucleic Acid Atoms Solvent Atoms 1680 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction XDS data reduction MOLREP phasing