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Crystal structure of probable alanyl-trna-synthase from Clostridium perfringens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 0.1M TRIS-HCL, PH 8.5, 25% PEG4000, 200MM AMMONIUM ACETATE, 10% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K
Crystal Properties Matthews coefficient Solvent content 2.7 54.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.849 α = 90 b = 57.922 β = 90 c = 178.441 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 90 CCD ADSC QUANTUM 315 MIRRORS 2009-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 98.3 0.075 10.7 3.7 41195 -5 45.755
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 96.9 0.6 3.2
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 SAD THROUGHOUT 2 20 38950 1251 97.76 0.21998 0.2187 0.2217 0.25935 0.2589 RANDOM 55.505
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] 2.79 -0.96 -1.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.715 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_4_deg 14.078 r_scangle_it 7.556 r_dihedral_angle_1_deg 5.628 r_scbond_it 5.487 r_mcangle_it 4.772 r_mcbond_it 3.351 r_angle_refined_deg 1.268 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.715 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_4_deg 14.078 r_scangle_it 7.556 r_dihedral_angle_1_deg 5.628 r_scbond_it 5.487 r_mcangle_it 4.772 r_mcbond_it 3.351 r_angle_refined_deg 1.268 r_nbtor_refined 0.3 r_xyhbond_nbd_refined 0.155 r_symmetry_hbond_refined 0.152 r_nbd_refined 0.14 r_symmetry_vdw_refined 0.139 r_chiral_restr 0.091 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3717 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 2
Software Software Software Name Purpose SHELX model building RESOLVE model building REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELX phasing RESOLVE phasing