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Crystal structure of FMN-bound DszC from Rhodococcus erythropolis D-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 0.2M Malonate (pH 6.0), 24% (w/v) PEG 3350, 50mM NaF, 1mM FMN, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.48 α = 90 b = 123.52 β = 101.31 c = 184.52 γ = 90
Symmetry Space Group C 1 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 100 CCD ADSC QUANTUM 210 2013-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 50 99.4 141218 140320 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.44 96.5
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 2.3 44.38 133279 7038 99.39 0.23165 0.22953 0.2294 0.27232 0.2711 RANDOM 41.111
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] 1.21 1.55 -1.46 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.804 r_dihedral_angle_4_deg 12.933 r_dihedral_angle_3_deg 12.754 r_dihedral_angle_1_deg 4.346 r_angle_refined_deg 0.867 r_mcangle_it 0.733 r_angle_other_deg 0.708 r_mcbond_it 0.393 r_mcbond_other 0.393 r_scbond_it 0.203
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.804 r_dihedral_angle_4_deg 12.933 r_dihedral_angle_3_deg 12.754 r_dihedral_angle_1_deg 4.346 r_angle_refined_deg 0.867 r_mcangle_it 0.733 r_angle_other_deg 0.708 r_mcbond_it 0.393 r_mcbond_other 0.393 r_scbond_it 0.203 r_chiral_restr 0.047 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 24462 Nucleic Acid Atoms Solvent Atoms 795 Heterogen Atoms 124
Software Software Software Name Purpose XDS data scaling MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling