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Crystal structure of Rpn6 from Drosophila melanogaster, native data
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 291 100 mM Tris HCl pH 7.5 200 mM Li2SO4, 12% PEG-3350, vapor diffusion, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.58 65.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.251 α = 90 b = 161.251 β = 90 c = 42.08 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 PIXEL PILATUS 6M 2010-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.00686 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.496 140.028 99.3 0.046 0.046 14.4 3.3 22030 22030 65.531
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 2.496 2.63 99 0.303 0.303 2.5 3.3 3175
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 FOURIER SYNTHESIS THROUGHOUT 2.496 20 20991 20825 1146 99.21 0.2182 0.2157 0.2095 0.265 0.2595 RANDOM 65.3496
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] -0.78 -0.39 -0.78 1.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.88 r_dihedral_angle_3_deg 18.55 r_dihedral_angle_4_deg 17.244 r_dihedral_angle_1_deg 5.043 r_scangle_it 2.79 r_scbond_it 1.723 r_angle_refined_deg 1.294 r_mcangle_it 1.039 r_mcbond_it 0.605 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.88 r_dihedral_angle_3_deg 18.55 r_dihedral_angle_4_deg 17.244 r_dihedral_angle_1_deg 5.043 r_scangle_it 2.79 r_scbond_it 1.723 r_angle_refined_deg 1.294 r_mcangle_it 1.039 r_mcbond_it 0.605 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.294 r_nbd_refined 0.22 r_xyhbond_nbd_refined 0.164 r_symmetry_hbond_refined 0.096 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2717 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms 22
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SHELXD phasing