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Crystal Structure of GumK, a beta-glucuronosyltransferase from Xanthomonas campestris
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.2 293 0.1 M Tris-HCl, 35% (w/v) PEG 3350, 0.2 M Li2SO4, 0.1 M CsCl, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 8.20
Crystal Properties Matthews coefficient Solvent content 4.24 58.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.629 α = 90 b = 123.629 β = 90 c = 174.307 γ = 120
Symmetry Space Group P 65 2 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 CCD ADSC QUANTUM 210 BEAM FOCUSED BY A TOROIDAL MIRROR 2006-04-27 M SINGLE WAVELENGTH 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C NSLS X12C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.9 107.211 100 0.069 0.069 9.9 14.1 62401
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 2 100 0.344 0.344 2.2 12.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 1.9 107.21 62367 62363 3159 100 0.182 0.181 0.1794 0.204 0.2025 RANDOM 18.6
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] 0.27 0.13 0.27 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.711 r_dihedral_angle_4_deg 16.438 r_dihedral_angle_3_deg 13.046 r_dihedral_angle_1_deg 5.444 r_scangle_it 3.491 r_scbond_it 2.218 r_mcangle_it 1.472 r_angle_refined_deg 1.277 r_mcbond_it 0.919 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.711 r_dihedral_angle_4_deg 16.438 r_dihedral_angle_3_deg 13.046 r_dihedral_angle_1_deg 5.444 r_scangle_it 3.491 r_scbond_it 2.218 r_mcangle_it 1.472 r_angle_refined_deg 1.277 r_mcbond_it 0.919 r_nbtor_refined 0.31 r_symmetry_hbond_refined 0.228 r_symmetry_vdw_refined 0.224 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 2963 Nucleic Acid Atoms Solvent Atoms 462 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction