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Structure of R173A A. niger Fdc1 with prFMN in the hydroxylated form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZA4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.2 M potassium thiocyanate, Bis-Tris propane pH 6.5, 20% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.4 48.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.23 α = 90 b = 64.11 β = 90 c = 87.44 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M 2014-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 1 Diamond I02
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 1.19 25.58 97 13.92 5.9 168295
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.19 1.233 0.7501 5.8 16015
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 4ZA4 1.19 25.85 159814 8451 97.15 0.14504 0.14414 0.1453 0.16192 0.1421 RANDOM 12.797
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] -0.16 0.41 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.651 r_dihedral_angle_4_deg 20.891 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_1_deg 6.554 r_long_range_B_refined 6.162 r_long_range_B_other 6.16 r_scangle_other 3.324 r_angle_refined_deg 2.564 r_scbond_other 2.367 r_scbond_it 2.366
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.651 r_dihedral_angle_4_deg 20.891 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_1_deg 6.554 r_long_range_B_refined 6.162 r_long_range_B_other 6.16 r_scangle_other 3.324 r_angle_refined_deg 2.564 r_scbond_other 2.367 r_scbond_it 2.366 r_mcangle_it 1.708 r_mcangle_other 1.707 r_mcbond_it 1.235 r_mcbond_other 1.232 r_angle_other_deg 1.221 r_chiral_restr 0.314 r_bond_refined_d 0.029 r_gen_planes_refined 0.015 r_gen_planes_other 0.004 r_bond_other_d 0.002 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 3809 Nucleic Acid Atoms Solvent Atoms 782 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling REFMAC phasing