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Crystal structure of the YueI protein from Bacillus subtilis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 294 100mM Tris-HCl pH 7.5, 28% PEG 1000, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 1.95 36.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.895 α = 89.88 b = 39.443 β = 108.05 c = 48.778 γ = 110.26
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 MAR CCD 165 mm 2006-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97958 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.4 46.08 94.3 0.123 0.123 10 3.5 42599 42599 13.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.48 86.9 0.577 0.577 1.7 2.7 5711
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.4 20 42531 2135 94.21 0.204 0.202 0.233 0.2292 RANDOM 21.047
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] 0.97 0.65 0.48 0.17 0.55 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.498 r_dihedral_angle_4_deg 18.707 r_dihedral_angle_3_deg 12.532 r_dihedral_angle_1_deg 5.349 r_scangle_it 3.661 r_scbond_it 2.442 r_mcangle_it 1.469 r_angle_refined_deg 1.22 r_mcbond_it 0.933 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.498 r_dihedral_angle_4_deg 18.707 r_dihedral_angle_3_deg 12.532 r_dihedral_angle_1_deg 5.349 r_scangle_it 3.661 r_scbond_it 2.442 r_mcangle_it 1.469 r_angle_refined_deg 1.22 r_mcbond_it 0.933 r_nbtor_refined 0.313 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.196 r_symmetry_vdw_refined 0.169 r_xyhbond_nbd_refined 0.12 r_chiral_restr 0.084 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2080 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing