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Mycobacterium tuberculosis transcriptional regulator EthR with bound inhibitory compound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5NIO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 300 PEG based
Crystal Properties Matthews coefficient Solvent content 2.58 52.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.83 α = 90 b = 120.83 β = 90 c = 33.61 γ = 90
Symmetry Space Group P 41 21 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 PILATUS 6M 2018-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.37 29.31 99.5 0.997 12.5 12 10601
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.37 2.41 0.96 5.32
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 5NIO 2.37 29.31 10033 538 99.39 0.2095 0.2066 0.2132 0.2636 0.2627 RANDOM 36.825
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] 1.97 1.97 -3.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.996 r_dihedral_angle_3_deg 18.52 r_dihedral_angle_4_deg 17.627 r_dihedral_angle_1_deg 5.439 r_mcangle_it 4.497 r_mcbond_it 3.068 r_mcbond_other 3.057 r_angle_other_deg 2.332 r_angle_refined_deg 1.697 r_chiral_restr 0.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.996 r_dihedral_angle_3_deg 18.52 r_dihedral_angle_4_deg 17.627 r_dihedral_angle_1_deg 5.439 r_mcangle_it 4.497 r_mcbond_it 3.068 r_mcbond_other 3.057 r_angle_other_deg 2.332 r_angle_refined_deg 1.697 r_chiral_restr 0.101 r_bond_other_d 0.035 r_gen_planes_other 0.029 r_bond_refined_d 0.015 r_gen_planes_refined 0.014
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1499 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Aimless data reduction pointless data scaling PHASER phasing