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Crystal Structure of the sensor histidine kinase regulator YycI from Bacillus subtitlis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 3.2 293 18% PEG1500, 100 MM CITRATE BUFFER, 200 mM lithium sulfate, pH 3.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 3.20
Crystal Properties Matthews coefficient Solvent content 2.5 50.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.792 α = 90 b = 161.922 β = 90.9 c = 180.156 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 CCD 2006-05-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 12.3.1 0.94645, 0.97969, 0.97955 ALS 12.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.89 90 92.7 0.084 12.4 3.8 71733 -4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.89 2.97 53.9 0.334 1.4 2.1
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.89 90 68065 3605 92.2 0.214 0.212 0.2542 0.262 0.2945 RANDOM 25.71
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] -0.35 0.23 -1.22 1.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.071 r_dihedral_angle_4_deg 17.812 r_dihedral_angle_3_deg 17.733 r_dihedral_angle_1_deg 6.655 r_scangle_it 6.394 r_scbond_it 4.636 r_mcangle_it 2.796 r_mcbond_it 1.925 r_angle_refined_deg 1.169 r_angle_other_deg 0.764
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.071 r_dihedral_angle_4_deg 17.812 r_dihedral_angle_3_deg 17.733 r_dihedral_angle_1_deg 6.655 r_scangle_it 6.394 r_scbond_it 4.636 r_mcangle_it 2.796 r_mcbond_it 1.925 r_angle_refined_deg 1.169 r_angle_other_deg 0.764 r_mcbond_other 0.386 r_nbd_refined 0.206 r_nbtor_refined 0.184 r_nbd_other 0.18 r_symmetry_vdw_other 0.177 r_symmetry_vdw_refined 0.165 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.089 r_nbtor_other 0.085 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_xyhbond_nbd_other 0.004 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 23395 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELXD phasing SHARP phasing