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Crystal structure of Barley Beta-Amylase complexed with 3-Deoxy-3-fluoro-maltose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XFR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 15% Polyacrylate, 100mM tris pH 8
Crystal Properties Matthews coefficient Solvent content 1.97 37.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.08 α = 90 b = 99.41 β = 90 c = 64.76 γ = 90
Symmetry Space Group P 21 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 6M 2013-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.77 64.76 99.5 0.065 0.074 0.034 0.998 13.1 4.6 46468 24.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.77 1.82 98 1.041 1.178 0.54 0.574 4.6
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 MOLECULAR REPLACEMENT THROUGHOUT 2XFR 1.77 64.76 43152 2293 97.29 0.1611 0.1591 0.1701 0.1992 0.2073 RANDOM 34.129
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] -1.09 -1.01 2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.545 r_dihedral_angle_4_deg 16.157 r_dihedral_angle_3_deg 13.697 r_dihedral_angle_1_deg 5.884 r_angle_refined_deg 1.481 r_angle_other_deg 0.992 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.545 r_dihedral_angle_4_deg 16.157 r_dihedral_angle_3_deg 13.697 r_dihedral_angle_1_deg 5.884 r_angle_refined_deg 1.481 r_angle_other_deg 0.992 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3877 Nucleic Acid Atoms Solvent Atoms 349 Heterogen Atoms 24
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction MOLREP phasing