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Crystal Structure of Yeast Rpn14, a Chaperone of the 19S Regulatory Particle of the Proteasome
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 298 PEG 3350, MgCl2, Tris, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.581 α = 90 b = 78.581 β = 90 c = 110.122 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 CCD Bruker DIP-6040 2008-02-13 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD Bruker DIP-6040 2008-02-13 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU 2 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.97914, 0.9794, 0.96417 SPring-8 BL44XU
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 1,2 2 39.28 100 0.046 10.1 5.3 26081 1 32.09
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) 2 2.11 100 0.405 2.1
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 2 19.34 24720 1325 99.99 0.203 0.2 0.2239 0.255 0.2614 RANDOM 39.994
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] -0.11 -0.05 -0.11 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.605 r_dihedral_angle_4_deg 23.854 r_dihedral_angle_3_deg 18.381 r_dihedral_angle_1_deg 8.792 r_scangle_it 4.736 r_scbond_it 2.949 r_mcangle_it 2.202 r_angle_refined_deg 1.968 r_mcbond_it 1.24 r_chiral_restr 0.135
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.605 r_dihedral_angle_4_deg 23.854 r_dihedral_angle_3_deg 18.381 r_dihedral_angle_1_deg 8.792 r_scangle_it 4.736 r_scbond_it 2.949 r_mcangle_it 2.202 r_angle_refined_deg 1.968 r_mcbond_it 1.24 r_chiral_restr 0.135 r_bond_refined_d 0.021 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3266 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling SHELX phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction MOSFLM data reduction SHARP phasing