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Crystal Structure of the alpha-L-arabinofuranosidase UmAbf62A from Ustilago maidys
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 285 20% (w/v) PEG 3350, 0.2 M Sodium phosphate, 0.05 M Na Acetate, VAPOR DIFFUSION, HANGING DROP, temperature 285.0K
Crystal Properties Matthews coefficient Solvent content 1.83 32.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.28 α = 90 b = 65.9 β = 90 c = 68.37 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 OXFORD ONYX CCD 2011-07-20 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 315r 2011-06-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.8266 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1,2 1 37.3 99.4 0.098 10 5.5 146472 145655 1 -3 15
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 1 1.03 95.4 0.642 1.96 4 10217
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 37.3 -3 138370 7283 99.45 0.11496 0.11369 0.1142 0.13946 0.1399 RANDOM 9.027
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] 0.02 -0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 44.485 r_dihedral_angle_2_deg 31.744 r_dihedral_angle_4_deg 24.21 r_sphericity_bonded 12.21 r_dihedral_angle_3_deg 10.427 r_dihedral_angle_1_deg 8.069 r_rigid_bond_restr 7.323 r_long_range_B_refined 5.505 r_long_range_B_other 3.835 r_scangle_other 3.002
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 44.485 r_dihedral_angle_2_deg 31.744 r_dihedral_angle_4_deg 24.21 r_sphericity_bonded 12.21 r_dihedral_angle_3_deg 10.427 r_dihedral_angle_1_deg 8.069 r_rigid_bond_restr 7.323 r_long_range_B_refined 5.505 r_long_range_B_other 3.835 r_scangle_other 3.002 r_scbond_it 2.837 r_scbond_other 2.837 r_angle_refined_deg 2.293 r_mcangle_other 1.694 r_mcangle_it 1.683 r_mcbond_it 1.395 r_mcbond_other 1.352 r_angle_other_deg 1.05 r_chiral_restr 0.141 r_bond_refined_d 0.022 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 2425 Nucleic Acid Atoms Solvent Atoms 478 Heterogen Atoms 40
Software Software Software Name Purpose XDS data scaling SHELX model building REFMAC refinement XDS data reduction XSCALE data scaling SHELX phasing