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Implications for interactions of proteasome with PAN and PA700 from the 1.9 A structure of a proteasome-11S activator complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PMA PDB entry 1pma
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.7 294 PEG 1000, sodium phosphate citrate, LiSO4, imidazole, pH 5.7, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.77 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 255.714 α = 90 b = 126.961 β = 92.63 c = 181.494 γ = 90
Symmetry Space Group C 1 2 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 CCD ADSC QUANTUM 4 2004-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.283 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 100 100 257676 257676
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 100
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1pma 2.3 20 257676 249402 991 99.98 0.17979 0.17979 0.17961 0.1788 0.22403 0.2235 RANDOM 45.254
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] 0.01 -0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.755 r_dihedral_angle_4_deg 17.01 r_dihedral_angle_3_deg 16.626 r_dihedral_angle_1_deg 6.531 r_scangle_it 3.936 r_scbond_it 2.482 r_mcangle_it 1.601 r_angle_refined_deg 1.464 r_mcbond_it 0.973 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.755 r_dihedral_angle_4_deg 17.01 r_dihedral_angle_3_deg 16.626 r_dihedral_angle_1_deg 6.531 r_scangle_it 3.936 r_scbond_it 2.482 r_mcangle_it 1.601 r_angle_refined_deg 1.464 r_mcbond_it 0.973 r_nbtor_refined 0.3 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.171 r_symmetry_vdw_refined 0.171 r_symmetry_hbond_refined 0.135 r_chiral_restr 0.097 r_bond_refined_d 0.015 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 35035 Nucleic Acid Atoms Solvent Atoms 1659 Heterogen Atoms 147
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing