☰ Navigation Tabs
yeast pyruvyltransferase Pvg1p
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.4 200 mM magnesium choloride, 10 mM zinc chloride, 26% (w/v) Poly(acrylic acid sodium salt) 5100 in 0.1 M HEPES (pH 7.5)
Crystal Properties Matthews coefficient Solvent content 2.53 51.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.529 α = 90 b = 85.529 β = 90 c = 93.611 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 100 CCD ADSC QUANTUM 315r 2012-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.3 SPring-8 BL38B1
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 2.46 10.99 99.8 25.14 5.77 55667
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 SAD THROUGHOUT 2.46 10.99 26299 1461 99.84 0.16814 0.1673 0.2225 0.18335 0.2573 RANDOM 53.694
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] -5.63 -5.63 11.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.85 r_dihedral_angle_4_deg 22.483 r_dihedral_angle_3_deg 14.17 r_dihedral_angle_1_deg 5.372 r_long_range_B_refined 4.078 r_long_range_B_other 4.071 r_mcangle_it 2.625 r_mcangle_other 2.625 r_scangle_other 2.25 r_mcbond_it 1.518
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.85 r_dihedral_angle_4_deg 22.483 r_dihedral_angle_3_deg 14.17 r_dihedral_angle_1_deg 5.372 r_long_range_B_refined 4.078 r_long_range_B_other 4.071 r_mcangle_it 2.625 r_mcangle_other 2.625 r_scangle_other 2.25 r_mcbond_it 1.518 r_mcbond_other 1.517 r_scbond_it 1.283 r_scbond_other 1.283 r_angle_refined_deg 0.959 r_angle_other_deg 0.861 r_chiral_restr 0.058 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.002 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 5243 Nucleic Acid Atoms Solvent Atoms 67 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement PHENIX refinement PHENIX model building Coot model building PHENIX phasing