☰ Navigation Tabs
A nonheme iron- and alpha-ketoglutarate- dependent halogenase that catalyzes nucleotide substrates
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7W5S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 Ammonium Sulfate, HEPES pH 7.5, PEG 400, di-Potassium hydrogen phosphate
Crystal Properties Matthews coefficient Solvent content 2.24 45.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.424 α = 90 b = 72.397 β = 90 c = 81.368 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 CMOS BRUKER PHOTON 100 2021-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 LIQUID ANODE BRUKER METALJET 1.34138
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 1.81 36.2 99.5 0.072 13.6 6.39 28970
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 1.81 1.84 0.353
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 7W5S 1.81 36.2 27250 1441 99.28 0.1696 0.1672 0.1789 0.2154 0.2289 RANDOM 19.95
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] -7.9 -9.17 17.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.449 r_dihedral_angle_4_deg 19.616 r_dihedral_angle_3_deg 14.514 r_dihedral_angle_1_deg 7.005 r_angle_refined_deg 1.775 r_angle_other_deg 1.476 r_chiral_restr 0.086 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.449 r_dihedral_angle_4_deg 19.616 r_dihedral_angle_3_deg 14.514 r_dihedral_angle_1_deg 7.005 r_angle_refined_deg 1.775 r_angle_other_deg 1.476 r_chiral_restr 0.086 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2311 Nucleic Acid Atoms Solvent Atoms 280 Heterogen Atoms 63
Software Software Software Name Purpose SADABS data scaling REFMAC refinement PDB_EXTRACT data extraction SAINT data reduction REFMAC phasing