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Crystal Structure of p-acetylphenylalanine-tRNA synthetase in complex with p-acetylphenylalanine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 20% PEG-300, 5% PEG-8000,10% glycerol 0.1M Tris, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.362 α = 90 b = 103.362 β = 90 c = 70.837 γ = 90
Symmetry Space Group P 43 21 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 ADSC QUANTUM 4 2004-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 1 ALS 5.0.3
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 2.5 100 99.1 0.096 0.096 17.9 13751 13751
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 2.5 2.59 97.3 0.557 0.557 2.2 1311
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 isomorphous with 1ZH0 THROUGHOUT 2.5 73.13 12978 12978 700 99.12 0.213 0.213 0.2094 0.2076 0.27773 0.2794 RANDOM 39.412
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] 0.85 0.85 -1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.557 r_dihedral_angle_3_deg 18.63 r_dihedral_angle_4_deg 18.333 r_scangle_it 6.357 r_dihedral_angle_1_deg 6.218 r_scbond_it 4.594 r_mcangle_it 1.888 r_angle_refined_deg 1.373 r_mcbond_it 1.186 r_angle_other_deg 0.758
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.557 r_dihedral_angle_3_deg 18.63 r_dihedral_angle_4_deg 18.333 r_scangle_it 6.357 r_dihedral_angle_1_deg 6.218 r_scbond_it 4.594 r_mcangle_it 1.888 r_angle_refined_deg 1.373 r_mcbond_it 1.186 r_angle_other_deg 0.758 r_nbd_refined 0.234 r_symmetry_vdw_refined 0.21 r_symmetry_vdw_other 0.189 r_nbtor_refined 0.187 r_nbd_other 0.183 r_xyhbond_nbd_refined 0.174 r_mcbond_other 0.121 r_nbtor_other 0.088 r_chiral_restr 0.08 r_symmetry_hbond_refined 0.078 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2462 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 23
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CCP4 phasing