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Crystal structure of sulX in complex with FMN and sulfadimethoxine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 298 24% PEG 500, 1.2 mM Zinc sulfate, 0.1M MES pH6.5
Crystal Properties Matthews coefficient Solvent content 3.92 68.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 133.963 α = 90 b = 133.963 β = 90 c = 139.239 γ = 120
Symmetry Space Group P 62 2 2
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 RAYONIX MX-300 2025-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1.0 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.37 25 98.4 1 27.54 13.5 30267
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.37 2.45 0.944 3.5
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 2.37 24.87 27324 1483 93.37 0.2122 0.20928 0.2195 0.26647 0.2702 RANDOM 65.05
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] 1.42 0.71 1.42 -4.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.981 r_dihedral_angle_4_deg 22.743 r_dihedral_angle_3_deg 17.39 r_long_range_B_refined 9.708 r_long_range_B_other 9.707 r_scangle_other 8.07 r_mcangle_it 7.565 r_mcangle_other 7.563 r_dihedral_angle_1_deg 6.492 r_scbond_it 6.279
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.981 r_dihedral_angle_4_deg 22.743 r_dihedral_angle_3_deg 17.39 r_long_range_B_refined 9.708 r_long_range_B_other 9.707 r_scangle_other 8.07 r_mcangle_it 7.565 r_mcangle_other 7.563 r_dihedral_angle_1_deg 6.492 r_scbond_it 6.279 r_scbond_other 6.124 r_mcbond_it 5.633 r_mcbond_other 5.632 r_angle_refined_deg 1.657 r_angle_other_deg 1.325 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3017 Nucleic Acid Atoms Solvent Atoms 93 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction SAINT data reduction SAINT data scaling PHASER phasing