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Crystal Structure of the Bacillus subtilis YkuI Protein, with an EAL Domain.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 295 0.2M Sodium Acetate thrihydrate, 0.1M Tris Hydrochloride, 30% PEG 4000., pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.38 48.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.335 α = 90 b = 125.271 β = 90 c = 167.962 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 CCD MARRESEARCH Mirrors 2003-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 5ID-B 0.97931 APS 5ID-B
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 2.6 25 94.7 0.044 17.54 2.97 30096 30096 -3 79
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 2.6 2.76 84.7 0.34 3.7 2.99 8054
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 SAD THROUGHOUT 2.61 24.04 28591 1505 100 0.20678 0.20255 0.2021 0.287 0.2823 RANDOM 65.693
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] 0.99 0.48 -1.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.908 r_dihedral_angle_3_deg 16.235 r_dihedral_angle_4_deg 12.833 r_scangle_it 4.766 r_dihedral_angle_1_deg 4.459 r_scbond_it 3.376 r_mcangle_it 1.975 r_mcbond_it 1.394 r_angle_refined_deg 1.257 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.908 r_dihedral_angle_3_deg 16.235 r_dihedral_angle_4_deg 12.833 r_scangle_it 4.766 r_dihedral_angle_1_deg 4.459 r_scbond_it 3.376 r_mcangle_it 1.975 r_mcbond_it 1.394 r_angle_refined_deg 1.257 r_nbtor_refined 0.308 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.161 r_xyhbond_nbd_refined 0.159 r_symmetry_hbond_refined 0.118 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6656 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling SOLVE phasing