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Mycobacterium tuberculosis glutamyl-tRNA synthetase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J09 PDB ENTRY 1J09
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 10% (W/V) PEG 8000, 200 MM CA(ACO)2, 100MM IMIDAZOLE (PH 7.0)
Crystal Properties Matthews coefficient Solvent content 2.34 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.13 α = 90 b = 61.483 β = 90 c = 169.547 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 CCD MIRROR 2005-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 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 1.65 20 88 0.07 11 2.7 152258
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 1.65 1.7 99 0.51 2.3 2.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1J09 1.65 19.52 53368 2840 87.8 0.208 0.206 0.2176 0.251 0.2604 RANDOM 25.63
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] -0.72 -0.25 0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.891 r_dihedral_angle_4_deg 18.036 r_dihedral_angle_3_deg 14.729 r_scangle_it 7.174 r_dihedral_angle_1_deg 6.14 r_scbond_it 5.42 r_mcangle_it 4.234 r_mcbond_it 3.519 r_angle_refined_deg 1.713 r_angle_other_deg 0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.891 r_dihedral_angle_4_deg 18.036 r_dihedral_angle_3_deg 14.729 r_scangle_it 7.174 r_dihedral_angle_1_deg 6.14 r_scbond_it 5.42 r_mcangle_it 4.234 r_mcbond_it 3.519 r_angle_refined_deg 1.713 r_angle_other_deg 0.93 r_symmetry_hbond_refined 0.338 r_symmetry_vdw_refined 0.284 r_symmetry_vdw_other 0.283 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.211 r_nbd_other 0.195 r_nbtor_refined 0.18 r_chiral_restr 0.106 r_nbtor_other 0.086 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3771 Nucleic Acid Atoms Solvent Atoms 406 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing