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The Three Dimensional Structure of Kynureninase from Pseudomonas fluorescens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C0N PDB ENTRY 1C0N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 lithium chloride, PEG 400, potassium phosphate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.01 38.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.076 α = 90 b = 68.076 β = 90 c = 137.976 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 2000-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 1.85 58.72 96.8 0.063 25.4 13.9 29707 -3 -3 44
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 1.85 1.88 92.9 0.608 2 1465
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIR and MR THROUGHOUT PDB ENTRY 1C0N 1.85 19.65 29707 28131 1576 96.63 0.15475 0.15475 0.15277 0.19154 0.2701 RANDOM 23.478
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] 0.24 0.12 0.24 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.613 r_scangle_it 2.569 r_scbond_it 1.513 r_angle_refined_deg 1.186 r_mcangle_it 0.886 r_angle_other_deg 0.827 r_mcbond_it 0.468 r_symmetry_vdw_other 0.24 r_nbd_other 0.229 r_nbd_refined 0.198
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.613 r_scangle_it 2.569 r_scbond_it 1.513 r_angle_refined_deg 1.186 r_mcangle_it 0.886 r_angle_other_deg 0.827 r_mcbond_it 0.468 r_symmetry_vdw_other 0.24 r_nbd_other 0.229 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.169 r_symmetry_hbond_refined 0.14 r_xyhbond_nbd_refined 0.133 r_nbtor_other 0.094 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3131 Nucleic Acid Atoms Solvent Atoms 428 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing