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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 pH6.5)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AMQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6.5 298 The well solutions contained 25 mM potassium phosphate and 43% saturated ammonium sulfate with 20 mM of SADTA at pH 6.5, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.94 58.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.897 α = 90 b = 84.9 β = 90 c = 78.877 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 27 99.6 0.065 10.8 7 51173
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 1.81 100 0.566 3.3 6.9 5050
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 1AMQ 1.75 76.92 3.3 49413 2656 99.58 0.1565 0.15438 0.1541 0.19706 0.1987 RANDOM 22.107
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] -1.13 0.45 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.826 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 14.248 r_dihedral_angle_1_deg 5.616 r_scangle_it 3.701 r_scbond_it 2.61 r_mcangle_it 1.584 r_angle_refined_deg 1.425 r_mcbond_it 1.011 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.826 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 14.248 r_dihedral_angle_1_deg 5.616 r_scangle_it 3.701 r_scbond_it 2.61 r_mcangle_it 1.584 r_angle_refined_deg 1.425 r_mcbond_it 1.011 r_nbtor_refined 0.307 r_nbd_refined 0.23 r_symmetry_vdw_refined 0.197 r_symmetry_hbond_refined 0.179 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2994 Nucleic Acid Atoms Solvent Atoms 407 Heterogen Atoms 133
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing