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Structure of SteB-RipA complex from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9HLE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.1 M CdCl2
0.1 M Na Acet pH 4.6
30 %v/v PEG 400
Crystal Properties Matthews coefficient Solvent content 5.07 76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.844 α = 90 b = 225.049 β = 124.36 c = 70.295 γ = 90
Symmetry Space Group C 1 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 100 PIXEL DECTRIS EIGER X 16M 2022-11-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.59281 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.217 63.02 88.5 0.0962 0.1069 0.0461 0.996 9.45 5.19 31204
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.217 2.401 51 0.9634 1.0935 0.5062 0.664 1.53 4.41 1560
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.22 58.03 31165 1612 62 0.2072 0.2056 0.1932 0.2372 0.2272 RANDOM 54.17
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] 8.3461 12.9835 -6.3549 -1.9912
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.62 t_omega_torsion 2.68 t_angle_deg 0.88 t_bond_d 0.007 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3335 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 16
Software Software Software Name Purpose autoPROC data processing XDS data reduction STARANISO data scaling PHASER phasing BUSTER refinement Coot model building