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Crystal structure of human kynurenine aminotransferase I in PMP form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1W7L PDB ENTRY 1W7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 pH 7.00
Crystal Properties Matthews coefficient Solvent content 4.27 71.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.461 α = 90 b = 145.461 β = 90 c = 67.087 γ = 120
Symmetry Space Group P 32 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 AREA DETECTOR MSC MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300
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 2.9 30 99.3 0.1 6.1 18243
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1W7L 2.9 38.92 17662 564 100 0.172 0.171 0.22 RANDOM 50.84
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] -4.15 -2.07 -4.15 6.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.975 r_scangle_it 3.923 r_scbond_it 2.235 r_angle_refined_deg 1.66 r_mcangle_it 1.571 r_mcbond_it 0.801 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.177 r_symmetry_hbond_refined 0.146 r_xyhbond_nbd_refined 0.144
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.975 r_scangle_it 3.923 r_scbond_it 2.235 r_angle_refined_deg 1.66 r_mcangle_it 1.571 r_mcbond_it 0.801 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.177 r_symmetry_hbond_refined 0.146 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.104 r_bond_refined_d 0.017 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3321 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling