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Structure of Fungal beta-mannosidase from Glycoside Hydrolase Family 2 of Trichoderma harzianum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 26% PEG 400, 0.13 M CDCL2, 0.1 M SODIUM ACETATE PH 4.7
Crystal Properties Matthews coefficient Solvent content 4.11 70.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 166.456 α = 90 b = 166.456 β = 90 c = 121.452 γ = 90
Symmetry Space Group P 41 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 LNLS D03B-MX1
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 1.9 48.3 99.1 0.13 7.9 7.4 131814 1.7
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 1.9 1.93 96.9 1.34 1.7 6.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 NONE 1.9 117.7 124990 6636 98.76 0.23498 0.2335 0.239 0.26254 0.2649 RANDOM 46.084
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] -0.03 -0.03 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.843 r_dihedral_angle_4_deg 16.635 r_dihedral_angle_3_deg 13.526 r_dihedral_angle_1_deg 6.632 r_angle_other_deg 2.443 r_mcangle_it 2.174 r_scbond_it 1.829 r_angle_refined_deg 1.511 r_mcbond_it 1.481 r_mcbond_other 1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.843 r_dihedral_angle_4_deg 16.635 r_dihedral_angle_3_deg 13.526 r_dihedral_angle_1_deg 6.632 r_angle_other_deg 2.443 r_mcangle_it 2.174 r_scbond_it 1.829 r_angle_refined_deg 1.511 r_mcbond_it 1.481 r_mcbond_other 1.48 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7206 Nucleic Acid Atoms Solvent Atoms 741 Heterogen Atoms 474
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling HKL2Map phasing