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Crystal Structure of catalytic fragment of E. coli AlaRS in complex with AMPPCP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 20% PEG 400, 0.2 M SODIUM SULFATE, vapor diffusion, sitting drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.9 57.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.823 α = 90 b = 111.393 β = 90 c = 118.538 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 ADSC QUANTUM 315r 2008-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.97950 SSRL BL9-1
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 2.11 50 93.9 0.068 26.792 8.5 32145
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 2.11 2.19 69.7 0.304 4.7 2350
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.11 41.1 32088 1624 93.79 0.179 0.176 0.1764 0.234 0.2279 RANDOM 30.643
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] 0.96 -0.55 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.403 r_dihedral_angle_4_deg 15.686 r_dihedral_angle_3_deg 13.28 r_scangle_it 9.409 r_mcangle_it 7.552 r_scbond_it 7.377 r_mcbond_it 6.171 r_dihedral_angle_1_deg 4.979 r_angle_refined_deg 0.907 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.403 r_dihedral_angle_4_deg 15.686 r_dihedral_angle_3_deg 13.28 r_scangle_it 9.409 r_mcangle_it 7.552 r_scbond_it 7.377 r_mcbond_it 6.171 r_dihedral_angle_1_deg 4.979 r_angle_refined_deg 0.907 r_nbtor_refined 0.318 r_symmetry_hbond_refined 0.257 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.212 r_symmetry_vdw_refined 0.186 r_chiral_restr 0.06 r_metal_ion_refined 0.048 r_bond_refined_d 0.005 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3516 Nucleic Acid Atoms Solvent Atoms 377 Heterogen Atoms 34
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection