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Crystal structure of native alfa-L-rhamnosidase from Aspergillus terreus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 100 mM MOPS pH 7.0, 40% PEG 300, 20 mM calcium acetate
Crystal Properties Matthews coefficient Solvent content 2.96 58.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.26 α = 90 b = 106.248 β = 90 c = 119.832 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2012-07-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.918 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.38 50 98.2 0.048 31.5 3.9 231137 22.39
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.38 1.39 77.8 0.425 1.1 2.2
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 SAD THROUGHOUT 1.38 45.82 203635 10709 90.94 0.1358 0.13414 0.1384 0.16801 0.1694 RANDOM 19.386
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] -0.32 0.72 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.469 r_sphericity_free 26.92 r_dihedral_angle_1_deg 14.885 r_dihedral_angle_4_deg 13.773 r_dihedral_angle_3_deg 11.058 r_sphericity_bonded 10.496 r_rigid_bond_restr 6.028 r_long_range_B_refined 4.032 r_long_range_B_other 4.032 r_scangle_other 3.566
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.469 r_sphericity_free 26.92 r_dihedral_angle_1_deg 14.885 r_dihedral_angle_4_deg 13.773 r_dihedral_angle_3_deg 11.058 r_sphericity_bonded 10.496 r_rigid_bond_restr 6.028 r_long_range_B_refined 4.032 r_long_range_B_other 4.032 r_scangle_other 3.566 r_scbond_it 3.092 r_scbond_other 3.091 r_mcangle_other 2.216 r_mcangle_it 2.206 r_mcbond_it 1.834 r_mcbond_other 1.805 r_angle_refined_deg 1.681 r_angle_other_deg 1.355 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_gen_planes_other 0.01 r_bond_other_d 0.003 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 6791 Nucleic Acid Atoms Solvent Atoms 1254 Heterogen Atoms 524
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MLPHARE phasing