☰ Navigation Tabs
X-Ray structure of H243I mutant of UDP-Galactose 4-epimerase from E.coli:evidence for existence of open and closed active site during catalysis.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 0.2M Ammonium Nitrate, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.08 40.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.11 α = 90 b = 91.16 β = 99.87 c = 80.26 γ = 90
Symmetry Space Group P 1 21 1
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 300K 2016-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.00 ELETTRA 5.2R
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 1.43 79.07 98.7 7.73 3.3 121857
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 1XEL 1.43 79.07 115821 6036 98.67 0.13517 0.13388 0.134 0.16014 0.1602 RANDOM 10.625
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] 0.53 -0.08 -0.06 -0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.032 r_dihedral_angle_4_deg 12.929 r_dihedral_angle_3_deg 10.921 r_dihedral_angle_1_deg 6.034 r_long_range_B_refined 4.278 r_long_range_B_other 4.032 r_scangle_other 2.932 r_angle_refined_deg 2.454 r_scbond_it 2.093 r_scbond_other 2.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.032 r_dihedral_angle_4_deg 12.929 r_dihedral_angle_3_deg 10.921 r_dihedral_angle_1_deg 6.034 r_long_range_B_refined 4.278 r_long_range_B_other 4.032 r_scangle_other 2.932 r_angle_refined_deg 2.454 r_scbond_it 2.093 r_scbond_other 2.089 r_mcangle_other 1.762 r_mcangle_it 1.758 r_mcbond_it 1.204 r_mcbond_other 1.181 r_angle_other_deg 1.157 r_chiral_restr 0.148 r_bond_refined_d 0.027 r_gen_planes_refined 0.013 r_bond_other_d 0.003 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5142 Nucleic Acid Atoms Solvent Atoms 644 Heterogen Atoms 148
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing