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Crystal structure of T110A mutant human Glutamate oxaloacetate transaminase 1 (GOT1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3II0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 25% w/v PEG 3,350, 0.1 M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.94 58.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 257.7 α = 90 b = 148.626 β = 89.98 c = 83.183 γ = 90
Symmetry Space Group C 1 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 CCD MARMOSAIC 300 mm CCD 2017-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.9787 APS 21-ID-D
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 3 50 99.77 0.09 9.42 4 4281
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 3 3.08 0.61
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 3II0 3 48.7 59473 3047 99.84 0.18538 0.18402 0.2064 0.21144 0.2362 RANDOM 70
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] -0.38 0.19 0.43 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.806 r_long_range_B_refined 20.407 r_long_range_B_other 20.407 r_dihedral_angle_3_deg 18.584 r_dihedral_angle_4_deg 18.175 r_mcangle_it 12.314 r_mcangle_other 12.313 r_scangle_other 10.366 r_mcbond_it 8.01 r_mcbond_other 8.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.806 r_long_range_B_refined 20.407 r_long_range_B_other 20.407 r_dihedral_angle_3_deg 18.584 r_dihedral_angle_4_deg 18.175 r_mcangle_it 12.314 r_mcangle_other 12.313 r_scangle_other 10.366 r_mcbond_it 8.01 r_mcbond_other 8.01 r_dihedral_angle_1_deg 7.953 r_scbond_it 6.831 r_scbond_other 6.83 r_angle_refined_deg 1.465 r_angle_other_deg 0.888 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18277 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 132
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing