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Structure of the Histidine Kinase CheA ATP-Binding domain in complex with compound QUI-SV-333
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I58
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 294.15 PEG 8000 30% Ammonium acetate 0.6 M Sodium acetate 0.065 M ph 4.5
Crystal Properties Matthews coefficient Solvent content 1.87 34.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.824 α = 90 b = 59.087 β = 97.418 c = 65.929 γ = 90
Symmetry Space Group P 1 21 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 9M 2020-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.912630 Diamond I04-1
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 1.8 65.38 99.1 0.023 0.032 0.022 0.998 30 3.2 28644
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) 1 1.8 1.847 0.048 0.066 0.045 0.995 3.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.8 65.377 28627 1447 98.867 0.183 0.1809 0.182 0.2304 0.229 18.394
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] -0.521 -0.003 0.056 0.451
RMS Deviations Key Refinement Restraint Deviation r_lrange_other 26.595 r_lrange_it 26.52 r_dihedral_angle_2_deg 24.067 r_dihedral_angle_6_deg 17.737 r_dihedral_angle_3_deg 15.843 r_scangle_it 6.101 r_scangle_other 6.1 r_dihedral_angle_1_deg 5.631 r_scbond_it 4.035 r_scbond_other 4.035
RMS Deviations Key Refinement Restraint Deviation r_lrange_other 26.595 r_lrange_it 26.52 r_dihedral_angle_2_deg 24.067 r_dihedral_angle_6_deg 17.737 r_dihedral_angle_3_deg 15.843 r_scangle_it 6.101 r_scangle_other 6.1 r_dihedral_angle_1_deg 5.631 r_scbond_it 4.035 r_scbond_other 4.035 r_mcangle_it 2.913 r_mcangle_other 2.912 r_mcbond_it 2.031 r_mcbond_other 2.03 r_angle_refined_deg 1.963 r_angle_other_deg 0.637 r_symmetry_nbd_refined 0.388 r_xyhbond_nbd_other 0.374 r_symmetry_xyhbond_nbd_refined 0.354 r_nbd_other 0.282 r_nbd_refined 0.24 r_symmetry_nbd_other 0.194 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.147 r_ncsr_local_group_1 0.117 r_chiral_restr 0.091 r_symmetry_nbtor_other 0.084 r_dihedral_angle_other_2_deg 0.073 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2685 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement Aimless data scaling DIALS data reduction PHASER phasing