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TYROSYL-TRNA SYNTHETASE FROM MYCOBACTERIUM TUBERCULOSIS IN UNLIGANDED STATE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2TS1 PDB ENTRY 2TS1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10% (W/V) PEG 6000, 1 M LICL, 0.1 M HEPES AT PH 7.0
Crystal Properties Matthews coefficient Solvent content 2.23 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.262 α = 74.42 b = 78.44 β = 83.19 c = 81.633 γ = 82.95
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 MARRESEARCH MIRRORS 2005-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 MPG/DESY, HAMBURG BW6
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 2.9 19.89 98.4 0.12 8.63 2.92 36581
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 2.9 2.97 97.6 0.63 1.86 2.9
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2TS1 2.9 19.89 34713 1864 98.4 0.204 0.201 0.257 0.2296 RANDOM 35.27
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] 0.78 -0.44 -0.16 -1.27 2.53 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.89 r_dihedral_angle_3_deg 18.766 r_dihedral_angle_4_deg 16.699 r_dihedral_angle_1_deg 6.507 r_scangle_it 3.812 r_scbond_it 2.281 r_mcangle_it 1.752 r_mcbond_it 1.148 r_angle_refined_deg 1.104 r_angle_other_deg 0.946
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.89 r_dihedral_angle_3_deg 18.766 r_dihedral_angle_4_deg 16.699 r_dihedral_angle_1_deg 6.507 r_scangle_it 3.812 r_scbond_it 2.281 r_mcangle_it 1.752 r_mcbond_it 1.148 r_angle_refined_deg 1.104 r_angle_other_deg 0.946 r_symmetry_vdw_other 0.255 r_nbd_refined 0.217 r_nbd_other 0.192 r_nbtor_refined 0.177 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.157 r_xyhbond_nbd_refined 0.151 r_mcbond_other 0.091 r_nbtor_other 0.082 r_chiral_restr 0.06 r_bond_refined_d 0.009 r_bond_other_d 0.006 r_gen_planes_refined 0.003 r_gen_planes_other 0.001 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_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 12468 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing