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Crystal Structure of PRP8 core domain IV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 296 2.5 M NaCl, 100 mM Tris-HCl pH 7.0, 100 mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.7 54.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.397 α = 90 b = 78.062 β = 90 c = 93.575 γ = 90
Symmetry Space Group P 21 21 21
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 2006-06-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.115872, 0.9796, 1.0200, 0.9797 ALS 8.3.1
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 1.85 100 99.7 0.044 27.879 3.9 47833
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 1.85 1.92 99.6 0.408 3.5 4687
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 1.85 59.98 47768 2414 99.55 0.208 0.206 0.2061 0.243 0.2425 RANDOM 27.164
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] 0.33 -0.47 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.371 r_dihedral_angle_4_deg 15.805 r_dihedral_angle_3_deg 14.545 r_dihedral_angle_1_deg 5.162 r_scangle_it 3.334 r_scbond_it 2.138 r_mcangle_it 1.464 r_angle_refined_deg 1.224 r_mcbond_it 0.876 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.371 r_dihedral_angle_4_deg 15.805 r_dihedral_angle_3_deg 14.545 r_dihedral_angle_1_deg 5.162 r_scangle_it 3.334 r_scbond_it 2.138 r_mcangle_it 1.464 r_angle_refined_deg 1.224 r_mcbond_it 0.876 r_nbtor_refined 0.308 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.191 r_xyhbond_nbd_refined 0.162 r_symmetry_hbond_refined 0.147 r_chiral_restr 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3439 Nucleic Acid Atoms Solvent Atoms 379 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection