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Crystal structure of the receiver domain of sensor histidine kinase PA1611 (PA1611REC) from Pseudomonas aeruginosa PAO1 with calcium ion coordinated in the active site cleft
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, HANGING DROP 291 PEG 8000, Ca(OAc)2, Imidazole-HCl
Crystal Properties Matthews coefficient Solvent content 1.65 25.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.065 α = 90 b = 55.065 β = 90 c = 68.957 γ = 120
Symmetry Space Group P 31 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 110 CCD RAYONIX MX300HE 2017-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1.0 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.31 30 94 0.096 0.104 0.039 16 7.3 27872
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.31 1.36 93.8 1.036 1.113 0.405 2.42 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 1.31 23.86 26479 1382 94.05 0.17808 0.17623 0.1768 0.21284 0.2133 RANDOM 17.451
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] 0.32 0.16 0.32 -1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.343 r_dihedral_angle_4_deg 26.093 r_dihedral_angle_3_deg 15.536 r_long_range_B_refined 7.794 r_long_range_B_other 7.42 r_dihedral_angle_1_deg 7.017 r_scangle_other 3.521 r_mcangle_it 2.759 r_mcangle_other 2.758 r_scbond_it 2.236
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.343 r_dihedral_angle_4_deg 26.093 r_dihedral_angle_3_deg 15.536 r_long_range_B_refined 7.794 r_long_range_B_other 7.42 r_dihedral_angle_1_deg 7.017 r_scangle_other 3.521 r_mcangle_it 2.759 r_mcangle_other 2.758 r_scbond_it 2.236 r_scbond_other 2.222 r_angle_refined_deg 1.784 r_mcbond_it 1.765 r_mcbond_other 1.694 r_angle_other_deg 1.561 r_chiral_restr 0.091 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001 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 969 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing