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crystal structure of the RNA binding SAM domain of saccharomyces cerevisiae Vts1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG 4000, ammonium chloride, calcium chloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.9 38.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 27.38 α = 90 b = 27.89 β = 90 c = 99.91 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 93 IMAGE PLATE RIGAKU RAXIS IV 2004-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-002 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.6 26.6 92.4 0.038 26.7 5.1 10544 9742 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.66 95.9 0.184 5.3 4 960
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 SIRAS THROUGHOUT 1.6 26.6 3 13063 9721 471 92.35 0.20811 0.20811 0.20575 0.2145 0.25571 0.2629 RANDOM 14.955
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] -0.2 -0.2 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.668 r_dihedral_angle_3_deg 11.903 r_dihedral_angle_4_deg 10.44 r_sphericity_free 5.706 r_dihedral_angle_1_deg 4.779 r_sphericity_bonded 4.587 r_scangle_it 3.739 r_scbond_it 3.555 r_rigid_bond_restr 3.269 r_mcangle_it 1.582
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.668 r_dihedral_angle_3_deg 11.903 r_dihedral_angle_4_deg 10.44 r_sphericity_free 5.706 r_dihedral_angle_1_deg 4.779 r_sphericity_bonded 4.587 r_scangle_it 3.739 r_scbond_it 3.555 r_rigid_bond_restr 3.269 r_mcangle_it 1.582 r_angle_refined_deg 1.334 r_mcbond_it 1.088 r_nbtor_refined 0.314 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.154 r_symmetry_vdw_refined 0.133 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 681 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction CrystalClear data scaling SHARP phasing