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Complex of Histidine-containing phosphotransfer protein and receiver domain of hybrid Histidine Kinase 6 from Chaetomium thermophilum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2R25
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 1.6 M ammonium sulphate
1 M lithium sulphate
Crystal Properties Matthews coefficient Solvent content 1.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.251 α = 90 b = 57.469 β = 90 c = 68.975 γ = 90
Symmetry Space Group P 21 21 21
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 2021-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97926 ALBA XALOC
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 2.4 68.97 100 0.157 0.17 0.064 0.996 9.2 7 9386
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 2.4 2.49 100 0.971 1.047 0.388 0.792 7.4
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 2R25 2.4 44.15 8874 471 99.95 0.22257 0.22031 0.2251 0.26794 0.2829 RANDOM 45.106
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] 6.16 -2.69 -3.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.251 r_dihedral_angle_1_deg 5.318 r_long_range_B_refined 4.815 r_long_range_B_other 4.813 r_dihedral_angle_2_deg 3.906 r_scangle_other 3.083 r_mcangle_it 2.718 r_mcangle_other 2.717 r_scbond_other 1.772 r_scbond_it 1.771
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.251 r_dihedral_angle_1_deg 5.318 r_long_range_B_refined 4.815 r_long_range_B_other 4.813 r_dihedral_angle_2_deg 3.906 r_scangle_other 3.083 r_mcangle_it 2.718 r_mcangle_other 2.717 r_scbond_other 1.772 r_scbond_it 1.771 r_mcbond_it 1.585 r_mcbond_other 1.585 r_angle_refined_deg 0.742 r_angle_other_deg 0.263 r_chiral_restr 0.034 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1870 Nucleic Acid Atoms Solvent Atoms 19 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PHASER phasing