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Structure of a novel NAD dependent-NDP-hexosamine 5,6-dehydratase, TunA, involved in tunicamycin biosynthesis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 20% polyethylene glycol 3350, 100mM 8v/v tascimate, pH 6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.453 α = 98.13 b = 51.061 β = 106.65 c = 67.804 γ = 94.36
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 RIGAKU SATURN 944+ M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT
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 22.26 0.18782 14.2 3.7 42667 42667
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 1.9 1.949 98.55 1.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.9 22.26 42667 2283 99.42 0.18812 0.18553 0.1826 0.23522 0.2294 RANDOM 41.811
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] 0.1 0.28 -0.26 0.08 0.68 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.756 r_dihedral_angle_4_deg 23.079 r_dihedral_angle_3_deg 17.104 r_dihedral_angle_1_deg 6.289 r_scangle_it 6.278 r_scbond_it 4.014 r_mcangle_it 3.537 r_rigid_bond_restr 2.302 r_mcbond_it 2.127 r_angle_refined_deg 2.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.756 r_dihedral_angle_4_deg 23.079 r_dihedral_angle_3_deg 17.104 r_dihedral_angle_1_deg 6.289 r_scangle_it 6.278 r_scbond_it 4.014 r_mcangle_it 3.537 r_rigid_bond_restr 2.302 r_mcbond_it 2.127 r_angle_refined_deg 2.002 r_chiral_restr 0.128 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4618 Nucleic Acid Atoms Solvent Atoms 219 Heterogen Atoms 166
Software Software Software Name Purpose HKL-2000 data collection CNS refinement REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CNS phasing