☰ Navigation Tabs
Alpha-Methylacyl-CoA racemase from Mycobacterium tuberculosis in complex with fenoprofenoyl-CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8RMW
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 4.04 69.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 276.731 α = 90 b = 276.731 β = 90 c = 390.112 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 2024-02-08 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) Rpim I (All) 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 2.07 225.71 100 0.193 0.037 0.999 14 27.6 451154
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 11.34 225.71 99.9 0.031 0.006 1 71 25.9
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 2.07 196.447 451117 22217 99.991 0.21 0.2078 0.2174 0.2483 0.2577 46.296
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] -0.18 -0.18 0.361
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.901 r_dihedral_angle_6_deg 15.408 r_dihedral_angle_2_deg 9.597 r_lrange_other 8.863 r_lrange_it 8.856 r_dihedral_angle_1_deg 7.072 r_scangle_it 6.855 r_scangle_other 6.855 r_mcangle_it 6.618 r_mcangle_other 6.618
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.901 r_dihedral_angle_6_deg 15.408 r_dihedral_angle_2_deg 9.597 r_lrange_other 8.863 r_lrange_it 8.856 r_dihedral_angle_1_deg 7.072 r_scangle_it 6.855 r_scangle_other 6.855 r_mcangle_it 6.618 r_mcangle_other 6.618 r_scbond_it 4.635 r_scbond_other 4.635 r_mcbond_it 4.625 r_mcbond_other 4.625 r_dihedral_angle_other_2_deg 3.261 r_angle_refined_deg 1.619 r_angle_other_deg 0.503 r_nbd_refined 0.227 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.166 r_symmetry_nbd_refined 0.158 r_nbd_other 0.155 r_symmetry_xyhbond_nbd_refined 0.148 r_symmetry_xyhbond_nbd_other 0.109 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 32447 Nucleic Acid Atoms Solvent Atoms 1403 Heterogen Atoms 780
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing Coot model building