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Crystal structure of T110A:S256A 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 298 0.1 M Tris pH 8.5, 20% w/v/ PEG MME 2,000, 0.2 M Trimethylamine N-oxide dehydrate
Crystal Properties Matthews coefficient Solvent content 2.32 47.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.085 α = 90 b = 84.085 β = 90 c = 210.128 γ = 120
Symmetry Space Group P 65 2 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 300 mm CCD 2017-04-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.9787 APS 21-ID-F
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 1.7 50 99.76 0.08 47.62 14.24 46568
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 1.7 1.74 0.51
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 1.7 50 46568 2464 99.76 0.18145 0.179 0.1934 0.22873 0.241 RANDOM 24.887
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.829 r_dihedral_angle_4_deg 18.733 r_dihedral_angle_3_deg 14.919 r_long_range_B_other 7.046 r_long_range_B_refined 7.044 r_dihedral_angle_1_deg 6.505 r_scangle_other 5.416 r_scbond_it 3.728 r_scbond_other 3.702 r_mcangle_other 3.232
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.829 r_dihedral_angle_4_deg 18.733 r_dihedral_angle_3_deg 14.919 r_long_range_B_other 7.046 r_long_range_B_refined 7.044 r_dihedral_angle_1_deg 6.505 r_scangle_other 5.416 r_scbond_it 3.728 r_scbond_other 3.702 r_mcangle_other 3.232 r_mcangle_it 3.23 r_mcbond_it 2.367 r_mcbond_other 2.346 r_angle_refined_deg 2.167 r_angle_other_deg 1.202 r_chiral_restr 0.165 r_bond_refined_d 0.022 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 3243 Nucleic Acid Atoms Solvent Atoms 237 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing