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Crystal structure of a PFU-PUL domain pair of Saccharomyces cerevisiae Doa1/Ufd3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 0.1M Tris-HCl (pH 7.5), 28% PEG 3350, 0.1M ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.71 54.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.115 α = 90 b = 103.115 β = 90 c = 72.117 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 315 2007-06-10 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.9789, 0.9792, 0.9640 SPring-8 BL41XU
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 33.75 100 0.062 11.2 34591
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 100 0.256 11.2
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 MAD THROUGHOUT 1.9 33.426 32712 1726 100 0.19594 0.19472 0.2015 0.21877 0.2242 RANDOM 23.49
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] -0.46 -0.23 -0.46 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.545 r_dihedral_angle_4_deg 15.646 r_dihedral_angle_3_deg 12.73 r_dihedral_angle_1_deg 5.386 r_scangle_it 2.902 r_scbond_it 1.986 r_mcangle_it 1.285 r_angle_refined_deg 1.096 r_mcbond_it 1.078 r_angle_other_deg 0.778
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.545 r_dihedral_angle_4_deg 15.646 r_dihedral_angle_3_deg 12.73 r_dihedral_angle_1_deg 5.386 r_scangle_it 2.902 r_scbond_it 1.986 r_mcangle_it 1.285 r_angle_refined_deg 1.096 r_mcbond_it 1.078 r_angle_other_deg 0.778 r_symmetry_vdw_other 0.274 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.209 r_nbtor_refined 0.18 r_nbd_other 0.162 r_mcbond_other 0.151 r_symmetry_hbond_refined 0.145 r_xyhbond_nbd_refined 0.132 r_nbtor_other 0.08 r_chiral_restr 0.064 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2543 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms
Software Software Software Name Purpose BSS data collection SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling