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Crystal structure of the conserved central domain of yeast Spn1/Iws1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 292 potassium chloride, sodium thiocyanate, PEG3350, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.08 40.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.6 α = 90 b = 67.8 β = 90 c = 76 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 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.9791, 0.9793, 0.9716 ALS 4.2.2
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 1.85 39.6 99.6 0.051 12.1 3.02 28618
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) 1.85 1.92 100 0.38 0.396 2.8 3.01 2813
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 1.85 33.15 28618 27160 1458 100 0.20658 0.20347 0.2033 0.26456 0.2635 RANDOM 34.686
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] -1.12 -0.43 1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.773 r_dihedral_angle_4_deg 22.922 r_dihedral_angle_3_deg 15.771 r_scangle_it 5.614 r_dihedral_angle_1_deg 5.438 r_scbond_it 3.515 r_mcangle_it 2.288 r_angle_refined_deg 1.71 r_mcbond_it 1.431 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.773 r_dihedral_angle_4_deg 22.922 r_dihedral_angle_3_deg 15.771 r_scangle_it 5.614 r_dihedral_angle_1_deg 5.438 r_scbond_it 3.515 r_mcangle_it 2.288 r_angle_refined_deg 1.71 r_mcbond_it 1.431 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.249 r_symmetry_vdw_refined 0.245 r_xyhbond_nbd_refined 0.24 r_nbd_refined 0.229 r_chiral_restr 0.107 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 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 2304 Nucleic Acid Atoms Solvent Atoms 414 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection SOLVE phasing REFMAC refinement d*TREK data reduction d*TREK data scaling