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beta-D-galactofuranosidase ORF1110 from Streptomyces sp. JHA19, ligand-free form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 100mM KSCN, 25% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 1.98 38.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.551 α = 90 b = 57.346 β = 92.05 c = 110.476 γ = 90
Symmetry Space Group P 1 21 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 EIGER X 4M 2022-02-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-1A 1.052 Photon Factory BL-1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.8 47.5 100 0.088 0.055 0.991 9.8 3.5 98339 12.22
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.83 99.9 0.525 0.328 0.756 2.6 3.5
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 SAD THROUGHOUT 1.8 47.5 93433 4888 99.96 0.14509 0.14342 0.17661 0.1765 RANDOM 15.696
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] -0.28 0.04 0.58 -0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.423 r_dihedral_angle_2_deg 8.242 r_dihedral_angle_1_deg 7.049 r_long_range_B_refined 3.978 r_long_range_B_other 3.852 r_scangle_other 3.025 r_scbond_it 1.966 r_scbond_other 1.966 r_mcangle_other 1.796 r_mcangle_it 1.795
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.423 r_dihedral_angle_2_deg 8.242 r_dihedral_angle_1_deg 7.049 r_long_range_B_refined 3.978 r_long_range_B_other 3.852 r_scangle_other 3.025 r_scbond_it 1.966 r_scbond_other 1.966 r_mcangle_other 1.796 r_mcangle_it 1.795 r_angle_refined_deg 1.728 r_mcbond_it 1.222 r_mcbond_other 1.215 r_angle_other_deg 0.609 r_chiral_restr 0.089 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 8984 Nucleic Acid Atoms Solvent Atoms 816 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling CRANK2 phasing