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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 2.63 53.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.698 α = 90 b = 121.698 β = 90 c = 33.776 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 EIGER2 XE 16M 2019-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9762 Diamond I03
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 1.27 86.05 99.8 1 17.9 17.9 67372
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 1.27 1.29 0.522 1.1
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 1.27 60.92 63818 3481 99.75 0.1927 0.1923 0.1978 0.1997 0.2061 RANDOM 24.933
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] 0.63 0.63 -1.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.591 r_dihedral_angle_4_deg 15.647 r_dihedral_angle_3_deg 12.597 r_mcangle_it 6.766 r_mcbond_it 6.672 r_mcbond_other 6.672 r_dihedral_angle_1_deg 5.073 r_angle_other_deg 2.429 r_angle_refined_deg 2.015 r_chiral_restr 0.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.591 r_dihedral_angle_4_deg 15.647 r_dihedral_angle_3_deg 12.597 r_mcangle_it 6.766 r_mcbond_it 6.672 r_mcbond_other 6.672 r_dihedral_angle_1_deg 5.073 r_angle_other_deg 2.429 r_angle_refined_deg 2.015 r_chiral_restr 0.121 r_bond_other_d 0.035 r_gen_planes_other 0.025 r_bond_refined_d 0.017 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1499 Nucleic Acid Atoms Solvent Atoms 168 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Aimless data reduction pointless data scaling PHASER phasing