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STRUCTURE OF THE FIRST GAF DOMAIN E87A MUTANT OF MYCOBACTERIUM TUBERCULOSIS DOSS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2W3D PDB ENTRY 2W3D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 19% PEG 6000, 200 MM CALCIUM ACETATE, 100 MM TRIS PH 7.0.
Crystal Properties Matthews coefficient Solvent content 2.36 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.932 α = 90 b = 86.913 β = 90 c = 100.973 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 294 CCD ADSC QUANTUM 210 2008-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6C1 PAL/PLS 6C1
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 1.8 50 98.2 0.07 32.3 6.8 29661 2
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 1.8 31.4 86.9 0.32 4.3 6
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 PDB ENTRY 2W3D 1.8 31.39 28098 1497 98.21 0.19913 0.19658 0.1951 0.24808 0.2459 RANDOM 23.518
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] 0.04 -0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.225 r_dihedral_angle_4_deg 15.908 r_dihedral_angle_3_deg 14.285 r_dihedral_angle_1_deg 5.788 r_scangle_it 3.68 r_scbond_it 2.429 r_mcangle_it 1.79 r_angle_refined_deg 1.491 r_mcbond_it 1.062 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.225 r_dihedral_angle_4_deg 15.908 r_dihedral_angle_3_deg 14.285 r_dihedral_angle_1_deg 5.788 r_scangle_it 3.68 r_scbond_it 2.429 r_mcangle_it 1.79 r_angle_refined_deg 1.491 r_mcbond_it 1.062 r_nbtor_refined 0.302 r_metal_ion_refined 0.246 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.177 r_symmetry_hbond_refined 0.133 r_chiral_restr 0.105 r_symmetry_metal_ion_refined 0.061 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2280 Nucleic Acid Atoms Solvent Atoms 219 Heterogen Atoms 93
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling AMoRE phasing