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Structural Studies Reveal The Inactivation of E. coli L-aspartate aminotransferase by (S)-4,5-amino-dihydro-2-thiophenecarboxylic acid (SADTA) via Two Mechanisms (at pH 8.0)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AMQ pdb entry 1AMQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 8 298 25 mM potassium phosphate, 43% saturated ammonium sulfate, 20 mM SADTA, pH 8.0, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.95 58.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.149 α = 90 b = 84.76 β = 90 c = 78.951 γ = 90
Symmetry Space Group C 2 2 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 ADSC QUANTUM 315 2005-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 1.75 24.8 98.2 0.065 12.5 4.7 48869
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 1.75 1.81 99.5 0.589 2.3 4.6 5143
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 pdb entry 1AMQ 1.75 24.8 2.3 48869 2612 98.18 0.15093 0.14883 0.1487 0.19031 0.1904 RANDOM 24.359
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] -1.04 1.07 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.679 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_3_deg 14.028 r_dihedral_angle_1_deg 6.514 r_scangle_it 3.834 r_scbond_it 2.623 r_mcangle_it 1.639 r_angle_refined_deg 1.486 r_mcbond_it 1.052 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.679 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_3_deg 14.028 r_dihedral_angle_1_deg 6.514 r_scangle_it 3.834 r_scbond_it 2.623 r_mcangle_it 1.639 r_angle_refined_deg 1.486 r_mcbond_it 1.052 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.224 r_chiral_restr 0.194 r_xyhbond_nbd_refined 0.169 r_symmetry_hbond_refined 0.152 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3077 Nucleic Acid Atoms Solvent Atoms 410 Heterogen Atoms 103
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing