☰ Navigation Tabs
Alpha-L-fucosidase isoenzyme 2 from Paenibacillus thiaminolyticus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 283.15 Condition:
0.1 M NaCl,
1.5 M ammonium acetate,
0.1 M BIS-TRIS pH 6.5
The condition was diluted to 80%
5 mM maltose as an additive
Crystal Properties Matthews coefficient Solvent content 3.36 63.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.118 α = 90 b = 125.118 β = 90 c = 231.905 γ = 120
Symmetry Space Group P 64 2 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 2M 2019-01-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.1 49.08 99.7 0.141 0.144 0.031 1 25.5 40.1 63022 43.2
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 2.1 2.15 100 3.57 3.653 0.77 0.822 1.9 42.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.1 49.08 59829 99.617 0.189 0.1887 0.1962 0.2252 0.2051 52.086
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] 1.83 0.915 1.83 -5.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.627 r_dihedral_angle_4_deg 17.521 r_dihedral_angle_3_deg 14.166 r_lrange_it 7.28 r_lrange_other 7.279 r_dihedral_angle_1_deg 7.272 r_scangle_it 6.354 r_scangle_other 6.323 r_scbond_it 4.71 r_scbond_other 4.667
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.627 r_dihedral_angle_4_deg 17.521 r_dihedral_angle_3_deg 14.166 r_lrange_it 7.28 r_lrange_other 7.279 r_dihedral_angle_1_deg 7.272 r_scangle_it 6.354 r_scangle_other 6.323 r_scbond_it 4.71 r_scbond_other 4.667 r_mcangle_it 4.429 r_mcangle_other 4.428 r_mcbond_it 3.579 r_mcbond_other 3.578 r_angle_refined_deg 1.553 r_angle_other_deg 1.32 r_nbd_other 0.216 r_symmetry_nbd_refined 0.214 r_nbd_refined 0.194 r_symmetry_nbd_other 0.182 r_nbtor_refined 0.167 r_xyhbond_nbd_refined 0.147 r_symmetry_xyhbond_nbd_refined 0.116 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.076 r_symmetry_xyhbond_nbd_other 0.059 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5231 Nucleic Acid Atoms Solvent Atoms 357 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling AutoSol phasing