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Gemin5 WD40 repeats in complex with a guanosyl moiety
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1 M Na-Citrate, pH 5.5, 0.2 M Ammonium Acetate, and 18% PEG4K with 1 mM GpppG
Crystal Properties Matthews coefficient Solvent content 2.35 47.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.198 α = 90 b = 125.253 β = 117.1 c = 60.889 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2012-01-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.8 32.51 96.8 0.053 0.062 0.032 0.999 17.9 3.8 69342
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 91.5 0.596 0.696 0.358 0.784 2.2 3.6 3909
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) Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.8 32.51 65819 3486 96.59 0.1687 0.167 0.1782 0.2004 0.2055 24.638
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] 0.68 0.09 -1.5 0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.889 r_dihedral_angle_4_deg 14.186 r_dihedral_angle_3_deg 11.91 r_dihedral_angle_1_deg 6.74 r_mcangle_it 3.521 r_mcbond_it 2.452 r_mcbond_other 2.451 r_angle_refined_deg 1.491 r_angle_other_deg 0.948 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.889 r_dihedral_angle_4_deg 14.186 r_dihedral_angle_3_deg 11.91 r_dihedral_angle_1_deg 6.74 r_mcangle_it 3.521 r_mcbond_it 2.452 r_mcbond_other 2.451 r_angle_refined_deg 1.491 r_angle_other_deg 0.948 r_chiral_restr 0.093 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5204 Nucleic Acid Atoms Solvent Atoms 309 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction