☰ Navigation Tabs
V369M mutant of Glutamyl-tRNA synthetase from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JA2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 200mM Ammonium Acetate, 15% (W/V)PEG4000, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.35 47.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.434 α = 90 b = 210.346 β = 99.35 c = 57.979 γ = 90
Symmetry Space Group P 1 21 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 MAR CCD 165 mm MIRROR 2009-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.05 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 1.95 20 96.9 0.052 20.2 3.1 72028 69795 2 28.2
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 1.95 1.98 98.5 0.529 2.1 3.1 3631
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 2ja2 1.95 10.41 70104 67945 3603 96.92 0.27464 0.27242 0.2733 0.31578 0.3155 RANDOM 32.515
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] 2.25 -3.28 -2.13 -1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.36 r_dihedral_angle_4_deg 18.959 r_dihedral_angle_3_deg 17.232 r_dihedral_angle_1_deg 5.735 r_scangle_it 2.408 r_scbond_it 1.611 r_angle_refined_deg 1.301 r_mcangle_it 1.173 r_mcbond_it 0.697 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.36 r_dihedral_angle_4_deg 18.959 r_dihedral_angle_3_deg 17.232 r_dihedral_angle_1_deg 5.735 r_scangle_it 2.408 r_scbond_it 1.611 r_angle_refined_deg 1.301 r_mcangle_it 1.173 r_mcbond_it 0.697 r_nbtor_refined 0.301 r_nbd_refined 0.216 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.198 r_symmetry_hbond_refined 0.155 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7517 Nucleic Acid Atoms Solvent Atoms 170 Heterogen Atoms
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling