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Structure of FasV in complex with FAD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E1T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289 1.8 M Ammonium citrate tribasic, pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.78 55.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.607 α = 90 b = 117.607 β = 90 c = 63.829 γ = 120
Symmetry Space Group P 31 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 PIXEL DECTRIS EIGER2 S 9M 2021-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.97918 SSRF BL02U1
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 1.5 58.8 100 0.09 20.8 19.2 81400
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 1.5 1.53 0.412
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 1.5 50.98 79329 1994 99.94 0.14848 0.14791 0.1525 0.17145 0.1755 RANDOM 13.75
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] -0.09 -0.04 -0.09 0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.094 r_dihedral_angle_4_deg 17.23 r_dihedral_angle_3_deg 12.117 r_dihedral_angle_1_deg 6.683 r_long_range_B_refined 4.852 r_long_range_B_other 4.813 r_scangle_other 4.289 r_scbond_other 2.886 r_scbond_it 2.883 r_mcangle_it 2.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.094 r_dihedral_angle_4_deg 17.23 r_dihedral_angle_3_deg 12.117 r_dihedral_angle_1_deg 6.683 r_long_range_B_refined 4.852 r_long_range_B_other 4.813 r_scangle_other 4.289 r_scbond_other 2.886 r_scbond_it 2.883 r_mcangle_it 2.075 r_mcangle_other 2.074 r_angle_refined_deg 2.064 r_angle_other_deg 1.611 r_mcbond_it 1.414 r_mcbond_other 1.413 r_chiral_restr 0.117 r_bond_refined_d 0.017 r_gen_planes_refined 0.013 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 3213 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing