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Sterol 3-beta-glucosyltransferase (ugt51) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c): UDPG complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RRV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 287.15 PEG 3350, magnesium chloride, Tris pH8.5
Crystal Properties Matthews coefficient Solvent content 1.94 36.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.66 α = 90 b = 80.562 β = 90 c = 154.587 γ = 90
Symmetry Space Group P 21 21 21
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 315r 2016-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9202 SSRF BL17U
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 1.903 77.38 99.9 0.164 0.102 18.04 14.5 65564
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.903 1.97 0.849
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1rrv 1.9 77.29 58702 3095 89.5 0.18712 0.18535 0.21936 0.2256 RANDOM 18.331
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] 0.72 -0.3 -0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.622 r_dihedral_angle_4_deg 16.614 r_dihedral_angle_3_deg 14.198 r_long_range_B_other 9.336 r_long_range_B_refined 9.33 r_scangle_other 8.028 r_dihedral_angle_1_deg 6.416 r_scbond_it 5.742 r_scbond_other 5.742 r_mcangle_it 4.928
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.622 r_dihedral_angle_4_deg 16.614 r_dihedral_angle_3_deg 14.198 r_long_range_B_other 9.336 r_long_range_B_refined 9.33 r_scangle_other 8.028 r_dihedral_angle_1_deg 6.416 r_scbond_it 5.742 r_scbond_other 5.742 r_mcangle_it 4.928 r_mcangle_other 4.928 r_mcbond_it 3.646 r_mcbond_other 3.646 r_angle_refined_deg 1.679 r_angle_other_deg 1.006 r_chiral_restr 0.1 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 6834 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling BALBES phasing