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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 2.61 52.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.416 α = 90 b = 121.416 β = 90 c = 33.709 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 1.76 85.89 100 0.999 11.5 12.3 25735
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 1.76 1.79 0.744 0.93
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 1.76 85.85 24403 1280 99.97 0.2119 0.2102 0.2211 0.2448 0.2491 RANDOM 30.561
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] 1.03 1.03 -2.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.266 r_dihedral_angle_4_deg 15.924 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 4.901 r_mcangle_it 3.812 r_mcbond_it 2.813 r_mcbond_other 2.759 r_angle_other_deg 2.344 r_angle_refined_deg 1.792 r_chiral_restr 0.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.266 r_dihedral_angle_4_deg 15.924 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 4.901 r_mcangle_it 3.812 r_mcbond_it 2.813 r_mcbond_other 2.759 r_angle_other_deg 2.344 r_angle_refined_deg 1.792 r_chiral_restr 0.109 r_bond_other_d 0.035 r_gen_planes_other 0.034 r_gen_planes_refined 0.017 r_bond_refined_d 0.016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1496 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Aimless data reduction pointless data scaling PHASER phasing