☰ Navigation Tabs
Alpha-Methylacyl-CoA racemase from Mycobacterium tuberculosis in complex with 2-(4-(2-(3-Trifluoromethylphenethoxy)phenylthiol)propanoyl-CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9I2T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295.15 4 M ammonium acetate, 0.1 M Bis-Trispropane, pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.99 69.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 276.774 α = 90 b = 276.774 β = 90 c = 390.024 γ = 90
Symmetry Space Group I 4 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2024-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.953731 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.2 225.72 100 0.334 0.998 8.9 27.8 376404
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.24 100 0.396 27
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.2 195.776 376356 18810 99.987 0.212 0.2096 0.2172 0.2488 0.253 45.807
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] -0.112 -0.112 0.224
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.845 r_dihedral_angle_6_deg 15.08 r_dihedral_angle_2_deg 10.727 r_lrange_other 9.215 r_lrange_it 9.206 r_dihedral_angle_1_deg 7.133 r_mcangle_it 6.8 r_mcangle_other 6.8 r_scangle_it 6.777 r_scangle_other 6.776
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.845 r_dihedral_angle_6_deg 15.08 r_dihedral_angle_2_deg 10.727 r_lrange_other 9.215 r_lrange_it 9.206 r_dihedral_angle_1_deg 7.133 r_mcangle_it 6.8 r_mcangle_other 6.8 r_scangle_it 6.777 r_scangle_other 6.776 r_mcbond_it 4.432 r_mcbond_other 4.432 r_scbond_it 4.39 r_scbond_other 4.39 r_angle_refined_deg 1.506 r_dihedral_angle_other_2_deg 1.387 r_angle_other_deg 0.48 r_nbd_refined 0.223 r_symmetry_nbd_other 0.195 r_nbtor_refined 0.181 r_symmetry_xyhbond_nbd_other 0.157 r_xyhbond_nbd_refined 0.155 r_nbd_other 0.143 r_symmetry_nbd_refined 0.122 r_symmetry_xyhbond_nbd_refined 0.087 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.067 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 32463 Nucleic Acid Atoms Solvent Atoms 884 Heterogen Atoms 864
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing Coot model building