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Fucosidase crystal structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 20.00 % w/v Polyethylene glycol 4,000 10.00 % w/v Glycerol 200 mM Magnesium sulfate
Crystal Properties Matthews coefficient Solvent content 2.69 54.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 308.1 α = 90 b = 81.169 β = 123.875 c = 194.237 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 PILATUS 6M 2013-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.9763 ALBA XALOC
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 2.25 161.27 100 0.103 0.119 0.058 0.996 10.1 4 189127
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.37 0.492 0.589 1.8
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 MAD FREE R-VALUE 2.25 148.634 189122 9500 99.959 0.195 0.1929 0.193 0.2239 0.2238 54.958
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] -1.044 0.17 -0.188 0.528
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.615 r_dihedral_angle_3_deg 15.245 r_dihedral_angle_2_deg 12.619 r_lrange_it 9.713 r_lrange_other 9.683 r_scangle_it 7.344 r_scangle_other 6.996 r_dihedral_angle_1_deg 6.485 r_mcangle_it 6.439 r_mcangle_other 6.439
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.615 r_dihedral_angle_3_deg 15.245 r_dihedral_angle_2_deg 12.619 r_lrange_it 9.713 r_lrange_other 9.683 r_scangle_it 7.344 r_scangle_other 6.996 r_dihedral_angle_1_deg 6.485 r_mcangle_it 6.439 r_mcangle_other 6.439 r_scbond_it 4.994 r_scbond_other 4.672 r_mcbond_it 4.347 r_mcbond_other 4.346 r_angle_refined_deg 1.741 r_angle_other_deg 0.618 r_symmetry_nbd_refined 0.333 r_nbd_other 0.225 r_nbd_refined 0.224 r_symmetry_nbd_other 0.2 r_nbtor_refined 0.187 r_xyhbond_nbd_refined 0.18 r_symmetry_xyhbond_nbd_refined 0.146 r_chiral_restr 0.099 r_ncsr_local_group_21 0.091 r_ncsr_local_group_24 0.091 r_ncsr_local_group_6 0.087 r_symmetry_nbtor_other 0.085 r_ncsr_local_group_28 0.085 r_ncsr_local_group_10 0.084 r_ncsr_local_group_13 0.083 r_ncsr_local_group_26 0.082 r_ncsr_local_group_12 0.081 r_ncsr_local_group_4 0.08 r_ncsr_local_group_15 0.08 r_ncsr_local_group_17 0.08 r_ncsr_local_group_19 0.08 r_ncsr_local_group_7 0.079 r_ncsr_local_group_14 0.079 r_ncsr_local_group_18 0.078 r_ncsr_local_group_27 0.078 r_ncsr_local_group_9 0.077 r_ncsr_local_group_20 0.077 r_ncsr_local_group_2 0.076 r_ncsr_local_group_16 0.076 r_ncsr_local_group_22 0.076 r_ncsr_local_group_23 0.076 r_symmetry_xyhbond_nbd_other 0.074 r_ncsr_local_group_3 0.074 r_ncsr_local_group_8 0.074 r_ncsr_local_group_5 0.072 r_ncsr_local_group_1 0.071 r_ncsr_local_group_11 0.071 r_ncsr_local_group_25 0.071 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 26025 Nucleic Acid Atoms Solvent Atoms 939 Heterogen Atoms 115
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling CRANK2 phasing