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The Structure of a Piwi protein from Archaeoglobus fulgidus.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 PROTEIN SOLUTION AT 10 MG/ML WAS MIXED WITH A SOLUTION CONTAINING 0.1 M SODIUM ACETATE PH 4.6, 0.1 M CADMIUM CHLORIDE, 30% PEG 400, 5 MM DTT. CRYSTALS COULD BE OBTAINED REPRODUCIBLY BY STREAK SEEDING IN TO THE CRYSTALLISATION SOLUTION AFTER A 3 HOUR EQUILIBRATION. CRYSTALS APPEARED AFTER 2-3 DAYS AND GREW AFTER 5 DAYS TO A FINAL SIZE OF 0.1 MM X 0.1 MM X 0.1 MM
Crystal Properties Matthews coefficient Solvent content 2.6 52.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.09 α = 90 b = 137.863 β = 90 c = 51.663 γ = 90
Symmetry Space Group P 21 21 2
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 MARRESEARCH 2004-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 1.95 30 98.6 0.05 18.6 4 143262
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 1.95 2.05 92.8 0.16 6.4 3.2
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 1.95 69.01 34383 1814 98.5 0.194 0.192 0.1912 0.237 0.2383 RANDOM 17.41
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] -0.95 1.83 -0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.712 r_dihedral_angle_3_deg 14.933 r_dihedral_angle_4_deg 12.412 r_dihedral_angle_1_deg 6.303 r_scangle_it 4.047 r_scbond_it 2.852 r_mcangle_it 1.8 r_angle_refined_deg 1.635 r_mcbond_it 1.188 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.712 r_dihedral_angle_3_deg 14.933 r_dihedral_angle_4_deg 12.412 r_dihedral_angle_1_deg 6.303 r_scangle_it 4.047 r_scbond_it 2.852 r_mcangle_it 1.8 r_angle_refined_deg 1.635 r_mcbond_it 1.188 r_nbtor_refined 0.314 r_symmetry_vdw_refined 0.273 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.207 r_symmetry_hbond_refined 0.2 r_chiral_restr 0.124 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3233 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 11
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SnB phasing SHARP phasing REFMAC refinement