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Glycosidase E335A in complex with glucose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 0.2M Ammonium citrate tribasic (pH 6.8), 0.1M Sodium citrate (pH 5.5), 12% PEGmonomethyl ether 2000, 2mM isomaltose
Crystal Properties Matthews coefficient Solvent content 2.79 55.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.83 α = 90 b = 104.83 β = 90 c = 89.45 γ = 90
Symmetry Space Group P 4 21 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 2016-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0000 Photon Factory AR-NE3A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.1 46.88 99.9 16.39 18.8 200183
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.16
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 THROUGHOUT 1.1 46.88 190172 10011 99.93 0.10827 0.1076 0.1072 0.12089 0.1096 RANDOM 14.669
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] 0.2 0.2 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.555 r_sphericity_free 23.817 r_dihedral_angle_4_deg 20.29 r_sphericity_bonded 13.977 r_dihedral_angle_3_deg 10.693 r_rigid_bond_restr 6.43 r_long_range_B_refined 5.715 r_long_range_B_other 5.715 r_mcangle_other 5.669 r_mcangle_it 5.639
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.555 r_sphericity_free 23.817 r_dihedral_angle_4_deg 20.29 r_sphericity_bonded 13.977 r_dihedral_angle_3_deg 10.693 r_rigid_bond_restr 6.43 r_long_range_B_refined 5.715 r_long_range_B_other 5.715 r_mcangle_other 5.669 r_mcangle_it 5.639 r_dihedral_angle_1_deg 5.444 r_mcbond_it 5.114 r_scangle_other 5.033 r_mcbond_other 5.024 r_scbond_it 4.688 r_scbond_other 4.684 r_angle_refined_deg 1.695 r_angle_other_deg 0.928 r_chiral_restr 0.135 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.009 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2858 Nucleic Acid Atoms Solvent Atoms 430 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement PHENIX refinement XDS data reduction XDS data scaling PHASER phasing