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Crystal structure of dethiobiotin synthetase in Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 1M sodium citrate, 0.1M imidazole, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.17 43.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.383 α = 90 b = 104.684 β = 90 c = 151.392 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 120 IMAGE PLATE RIGAKU RAXIS IV++ M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE OTHER 1.541
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 1.85 31.7 99 0.059 17.2 4.4 73740
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 1.85 1.95 93.7 0.5 1.4 2.7
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.85 31.7 70111 3705 97.12 0.21632 0.21436 0.2111 0.25332 0.2492 RANDOM 35.247
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] 1.48 0.8 -2.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.979 r_dihedral_angle_4_deg 21.881 r_dihedral_angle_3_deg 19.127 r_scangle_it 6.161 r_dihedral_angle_1_deg 5.822 r_scbond_it 4.588 r_mcangle_it 3.196 r_mcbond_it 2.295 r_angle_refined_deg 1.26 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.979 r_dihedral_angle_4_deg 21.881 r_dihedral_angle_3_deg 19.127 r_scangle_it 6.161 r_dihedral_angle_1_deg 5.822 r_scbond_it 4.588 r_mcangle_it 3.196 r_mcbond_it 2.295 r_angle_refined_deg 1.26 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.246 r_symmetry_vdw_refined 0.228 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.18 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6318 Nucleic Acid Atoms Solvent Atoms 320 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection SHARP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling