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Alternative analogs as viable substrates of UDP-hexose 4-epimerases
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LU1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microbatch under oil 6.5 298.15 25% PEG 3350, 0.2 M Ammonium Sulfate, 200 mM Bis Tris Propane pH 6.5, microbatch under oil, temperature 298.15K
Crystal Properties Matthews coefficient Solvent content 2.49 50.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.185 α = 90 b = 78.185 β = 90 c = 224.818 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 CCD ADSC QUANTUM 315 2011-04-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.98 APS 19-ID
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 2.3 75.9 100 64466 64466 2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 3LU1 2.3 74.94 2 64466 64466 3443 99.74 0.20136 0.20136 0.1987 0.1982 0.25153 0.2482 RANDOM 41.231
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] -0.18 -0.09 -0.18 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.936 r_dihedral_angle_4_deg 17.005 r_dihedral_angle_3_deg 16.721 r_dihedral_angle_1_deg 6.442 r_scangle_it 4.07 r_scbond_it 2.652 r_angle_refined_deg 1.723 r_mcangle_it 1.645 r_mcbond_it 0.916 r_chiral_restr 0.119
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.936 r_dihedral_angle_4_deg 17.005 r_dihedral_angle_3_deg 16.721 r_dihedral_angle_1_deg 6.442 r_scangle_it 4.07 r_scbond_it 2.652 r_angle_refined_deg 1.723 r_mcangle_it 1.645 r_mcbond_it 0.916 r_chiral_restr 0.119 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10724 Nucleic Acid Atoms Solvent Atoms 276 Heterogen Atoms 276
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling