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X-ray crystal structure of Y140F FtmOx1 bound to Fe(II)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZON PDB entry 4ZON
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 8.5 293 PEG4000, magnesium chloride, Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.07 40.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.884 α = 90 b = 78.069 β = 90 c = 91.444 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 PIXEL DECTRIS EIGER X 16M 2018-03-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.979 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.55 50 96.5 0.04 0.046 0.021 11.5 4.3 75233
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.58 97.5 0.417 0.485 0.241 0.85 3.7
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 PDB entry 4ZON 1.55 59.37 70978 3689 95.62 0.2139 0.2125 0.221 0.2398 0.2448 RANDOM 14.996
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] -0.01 0.27 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.28 r_dihedral_angle_4_deg 16.03 r_dihedral_angle_3_deg 12.669 r_dihedral_angle_1_deg 5.829 r_angle_refined_deg 1.074 r_angle_other_deg 0.727 r_chiral_restr 0.061 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.28 r_dihedral_angle_4_deg 16.03 r_dihedral_angle_3_deg 12.669 r_dihedral_angle_1_deg 5.829 r_angle_refined_deg 1.074 r_angle_other_deg 0.727 r_chiral_restr 0.061 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4481 Nucleic Acid Atoms Solvent Atoms 257 Heterogen Atoms 2
Software Software Software Name Purpose HKL-2000 data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing