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Structure of UbiX in complex with reduced prenylated FMN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 297 12% PEG 3350, 150mM sodium thiocyanate, and 100mM Tris pH 7.2
Crystal Properties Matthews coefficient Solvent content 2.71 54.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 142.74 α = 90 b = 142.74 β = 90 c = 142.74 γ = 90
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 PSI PILATUS 6M 2014-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.987 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.89 43.04 99.9 0.043 13.4 6.7 18350
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.89 1.94 99.9 0.33 2.7 6.7
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 MOLECULAR REPLACEMENT THROUGHOUT 1.89 43.04 18350 990 99.87 0.14969 0.14757 0.1609 0.1916 0.2036 RANDOM 24.073
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.604 r_dihedral_angle_4_deg 20.141 r_dihedral_angle_3_deg 12.94 r_long_range_B_refined 6.309 r_long_range_B_other 6.197 r_dihedral_angle_1_deg 5.967 r_scangle_other 5.253 r_scbond_it 3.433 r_scbond_other 3.381 r_mcangle_it 3.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.604 r_dihedral_angle_4_deg 20.141 r_dihedral_angle_3_deg 12.94 r_long_range_B_refined 6.309 r_long_range_B_other 6.197 r_dihedral_angle_1_deg 5.967 r_scangle_other 5.253 r_scbond_it 3.433 r_scbond_other 3.381 r_mcangle_it 3.143 r_mcangle_other 3.143 r_mcbond_it 2.251 r_mcbond_other 2.169 r_angle_refined_deg 1.972 r_angle_other_deg 1.08 r_chiral_restr 0.238 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_bond_other_d 0.004 r_gen_planes_other 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 1546 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling REFMAC phasing