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Crystal structure of the single-stranded DNA-binding protein from Mycobacterium SMEGMATIS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 298 1M sodium acetate, 500mM sodium chloride, 50mM cadmium acetate, 20mM Tris-HCl, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 40.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.886 α = 90 b = 79.886 β = 90 c = 81.288 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 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 3 20 96.1 0.114 6324 6048
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) 3 3.11 98 0.481
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3 20 5455 5455 587 96.39 0.20941 0.20941 0.20399 0.2082 0.25807 0.1909 RANDOM 39.172
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] -0.69 -0.34 -0.69 1.03
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.03 r_dihedral_angle_1_deg 4.858 r_scbond_it 3.795 r_mcangle_it 3.371 r_angle_other_deg 1.964 r_angle_refined_deg 1.879 r_mcbond_it 1.766 r_symmetry_hbond_refined 1.413 r_symmetry_vdw_refined 0.438 r_symmetry_vdw_other 0.351
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.03 r_dihedral_angle_1_deg 4.858 r_scbond_it 3.795 r_mcangle_it 3.371 r_angle_other_deg 1.964 r_angle_refined_deg 1.879 r_mcbond_it 1.766 r_symmetry_hbond_refined 1.413 r_symmetry_vdw_refined 0.438 r_symmetry_vdw_other 0.351 r_nbd_other 0.271 r_nbd_refined 0.257 r_xyhbond_nbd_refined 0.191 r_metal_ion_refined 0.152 r_chiral_restr 0.101 r_nbtor_other 0.092 r_bond_refined_d 0.022 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_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 1647 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing