☰ Navigation Tabs
Faecalibacterium duncaniae branching enzyme FdBE2 unliganded form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-C7H686-F1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG4000, PEG3350, ammonium sulfate, Tris-HCl pH8.5
Crystal Properties Matthews coefficient Solvent content 2.4 48.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 165.84 α = 90 b = 73.988 β = 91.29 c = 57.146 γ = 90
Symmetry Space Group C 1 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 PILATUS3 6M 2022-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.7 47.5 99.2 0.031 0.02 16.3 3.3 75427
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 96 0.31 0.236 2.2 2.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.7 47.54 71651 3775 99.21 0.14984 0.14862 0.17284 0.1784 RANDOM 22.081
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.643 r_dihedral_angle_1_deg 6.786 r_long_range_B_refined 4.494 r_dihedral_angle_2_deg 4.434 r_long_range_B_other 4.392 r_scangle_other 2.918 r_mcangle_it 2.133 r_mcangle_other 2.133 r_scbond_it 1.792 r_scbond_other 1.792
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.643 r_dihedral_angle_1_deg 6.786 r_long_range_B_refined 4.494 r_dihedral_angle_2_deg 4.434 r_long_range_B_other 4.392 r_scangle_other 2.918 r_mcangle_it 2.133 r_mcangle_other 2.133 r_scbond_it 1.792 r_scbond_other 1.792 r_mcbond_it 1.301 r_mcbond_other 1.301 r_angle_refined_deg 1.197 r_angle_other_deg 0.702 r_chiral_restr 0.064 r_gen_planes_other 0.006 r_gen_planes_refined 0.005 r_bond_refined_d 0.004 r_bond_other_d 0.002 r_dihedral_angle_4_deg 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 4927 Nucleic Acid Atoms Solvent Atoms 483 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing