☰ Navigation Tabs
Complex structure of beta-galactosidase from Trichoderma reesei with galactose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OG2 PDB ENTRY 3OG2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 8% PEG 8000, 0.1M sodium cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.85 56.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.43 α = 109.03 b = 69.28 β = 97.34 c = 81.5 γ = 114.38
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 2008-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 1.00 EMBL/DESY, HAMBURG X12
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 1.5 20 92.6 194058 179614 3.43
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 1.5 1.6 92.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3OG2 1.5 19.78 179614 170633 8981 100 0.13 0.1303 0.12833 0.1445 0.16758 0.1645 RANDOM 13.874
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] -0.39 0.33 -0.26 0.58 -0.69 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.408 r_dihedral_angle_4_deg 19.032 r_dihedral_angle_3_deg 12.068 r_sphericity_free 9.742 r_dihedral_angle_1_deg 6.668 r_sphericity_bonded 4.482 r_rigid_bond_restr 2.625 r_angle_refined_deg 1.977 r_chiral_restr 0.162 r_bond_refined_d 0.025
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.408 r_dihedral_angle_4_deg 19.032 r_dihedral_angle_3_deg 12.068 r_sphericity_free 9.742 r_dihedral_angle_1_deg 6.668 r_sphericity_bonded 4.482 r_rigid_bond_restr 2.625 r_angle_refined_deg 1.977 r_chiral_restr 0.162 r_bond_refined_d 0.025 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7622 Nucleic Acid Atoms Solvent Atoms 1031 Heterogen Atoms 267
Software Software Software Name Purpose MAR345dtb data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling