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Structure of S. cerevisiae PCNA conjugated to SUMO on lysine 164
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PLQ PDB ENTRIES 1PLQ and 1EUV experimental model PDB 1EUV PDB ENTRIES 1PLQ and 1EUV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 21% MPD, 100 mM BaCl2, 100 mM Bis-Tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.31 62.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.06 α = 90 b = 140.06 β = 90 c = 52.119 γ = 90
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 315 2006-08-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.9792 APS 24-ID-C
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 2.8 50 97.2 0.08 10 3.1 73601 23649
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 2.8 2.9 89.4 0.376 2.4 2180
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRIES 1PLQ and 1EUV 2.8 50 12550 617 98.94 0.2163 0.2142 0.2181 0.2541 0.2513 RANDOM 57.4447
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] -2.14 -2.14 4.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.634 r_dihedral_angle_3_deg 19.093 r_dihedral_angle_4_deg 17.472 r_dihedral_angle_1_deg 5.807 r_scangle_it 2.178 r_angle_refined_deg 1.289 r_scbond_it 1.251 r_mcangle_it 1.147 r_mcbond_it 0.608 r_chiral_restr 0.081
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.634 r_dihedral_angle_3_deg 19.093 r_dihedral_angle_4_deg 17.472 r_dihedral_angle_1_deg 5.807 r_scangle_it 2.178 r_angle_refined_deg 1.289 r_scbond_it 1.251 r_mcangle_it 1.147 r_mcbond_it 0.608 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2604 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 31
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction MOLREP phasing