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Crystal structure of the single-stranded dna-binding protein from Mycobacterium tuberculosis- Form III
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UE1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 295 3.5M sodium formate, 100mM bis-tris propane pH 7.0
Crystal Properties Matthews coefficient Solvent content 1.82 32.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.55 α = 90 b = 59.55 β = 90 c = 124.98 γ = 120
Symmetry Space Group P 32 1 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 IMAGE PLATE RIGAKU RAXIS IV 2019-01-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU ULTRAX 18 1.5418
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 1.92 39 96.6 0.088 10.9 5.3 18944 31.6
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 1.92 2.02 94.1 0.744 2.2 5.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1UE1 1.92 39 17963 974 96.17 0.19328 0.19124 0.1986 0.22864 0.2334 RANDOM 38.592
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] 0.12 0.06 0.12 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.411 r_dihedral_angle_4_deg 18.473 r_dihedral_angle_3_deg 14.673 r_long_range_B_other 9.098 r_long_range_B_refined 9.083 r_dihedral_angle_1_deg 7.795 r_scangle_other 6.955 r_mcangle_it 5.464 r_mcangle_other 5.462 r_scbond_it 4.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.411 r_dihedral_angle_4_deg 18.473 r_dihedral_angle_3_deg 14.673 r_long_range_B_other 9.098 r_long_range_B_refined 9.083 r_dihedral_angle_1_deg 7.795 r_scangle_other 6.955 r_mcangle_it 5.464 r_mcangle_other 5.462 r_scbond_it 4.68 r_scbond_other 4.646 r_mcbond_it 3.72 r_mcbond_other 3.718 r_angle_refined_deg 1.457 r_angle_other_deg 0.926 r_chiral_restr 0.063 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1675 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing