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Crystal structure of human Glutamate oxaloacetate transaminase 1 (GOT1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AJS PDB ENTRY 1AJS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.25M Na_K_tartrate; 15w/v PEG_3350, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.65 53.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.531 α = 90 b = 107.347 β = 90 c = 239.997 γ = 90
Symmetry Space Group P 21 21 21
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 2009-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97630 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.05 56.04 99.9 0.108 0.108 8.7 4 127732
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.16 100 0.78 0.78 1.7 4 74702
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1AJS 2.05 56.04 121312 121312 6417 99.82 0.18259 0.18259 0.18047 0.1924 0.22316 0.2325 RANDOM 16.762
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] 1.62 -1.7 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.614 r_dihedral_angle_4_deg 18.796 r_dihedral_angle_3_deg 13.419 r_dihedral_angle_1_deg 5.624 r_scangle_it 4.002 r_scbond_it 2.789 r_mcangle_it 1.607 r_angle_refined_deg 1.444 r_angle_other_deg 0.937 r_mcbond_it 0.932
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.614 r_dihedral_angle_4_deg 18.796 r_dihedral_angle_3_deg 13.419 r_dihedral_angle_1_deg 5.624 r_scangle_it 4.002 r_scbond_it 2.789 r_mcangle_it 1.607 r_angle_refined_deg 1.444 r_angle_other_deg 0.937 r_mcbond_it 0.932 r_mcbond_other 0.33 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12745 Nucleic Acid Atoms Solvent Atoms 733 Heterogen Atoms 156
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling