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Structure of Streptococcus pneumoniae methionyl-tRNA synthetase bound to the sulphamoyl analogue of methionyl-adenylate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model SwissModel
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 288 Don't know.
Crystal Properties Matthews coefficient Solvent content 2.53 51.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 150.365 α = 90 b = 72.888 β = 117.42 c = 78.881 γ = 90
Symmetry Space Group C 1 2 1
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 210 2002-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9791 ESRF ID29
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 2.3 20 93.9 0.085 8.2 3.5 31310
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 2.3 2.36 0.382 1.7
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.3 20 31310 1561 93.09 0.21 0.2083 0.2471 0.2564 39.998
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] -2.847 -0.929 4.181 -0.241
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.245 r_dihedral_angle_6_deg 11.93 r_dihedral_angle_1_deg 6.066 r_lrange_it 5.231 r_lrange_other 5.229 r_dihedral_angle_2_deg 4.541 r_scangle_it 3.556 r_scangle_other 3.556 r_mcangle_it 3.17 r_mcangle_other 3.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.245 r_dihedral_angle_6_deg 11.93 r_dihedral_angle_1_deg 6.066 r_lrange_it 5.231 r_lrange_other 5.229 r_dihedral_angle_2_deg 4.541 r_scangle_it 3.556 r_scangle_other 3.556 r_mcangle_it 3.17 r_mcangle_other 3.17 r_scbond_it 2.035 r_scbond_other 2.035 r_mcbond_it 1.851 r_mcbond_other 1.849 r_angle_refined_deg 1.033 r_angle_other_deg 0.407 r_symmetry_nbd_refined 0.259 r_nbd_refined 0.196 r_symmetry_nbd_other 0.179 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.106 r_nbd_other 0.095 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.056 r_symmetry_xyhbond_nbd_refined 0.028 r_dihedral_angle_other_2_deg 0.004 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4032 Nucleic Acid Atoms Solvent Atoms 48 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing