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Crystal structure of the Prp19 U-box dimer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 277 15 mgs/ml and 33% Poly-Ethylene Glycol (PEG) 4000, 75 mM MgCl2, 0.1 M Tris pH 8.5, 1 mM DTT , VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.14 42.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.421 α = 90 b = 57.105 β = 90 c = 122.587 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 MARRESEARCH 2004-05-01 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARRESEARCH 2004-05-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CAMD BEAMLINE GCPCC 1.381 CAMD GCPCC 2 SYNCHROTRON CAMD BEAMLINE GCPCC 0.97965, 0.97934, 0.92526 CAMD GCPCC
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 1.5 22.94 93.3 56552 52748
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.5 1.57 86.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.5 22.94 52742 49928 2667 93.4 0.18363 0.18249 0.20396 0.2016 RANDOM 17.361
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.587 r_scangle_it 3.621 r_scbond_it 2.11 r_mcangle_it 1.569 r_angle_refined_deg 1.468 r_mcbond_it 0.881 r_angle_other_deg 0.797 r_symmetry_vdw_other 0.265 r_nbd_other 0.239 r_symmetry_hbond_refined 0.204
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.587 r_scangle_it 3.621 r_scbond_it 2.11 r_mcangle_it 1.569 r_angle_refined_deg 1.468 r_mcbond_it 0.881 r_angle_other_deg 0.797 r_symmetry_vdw_other 0.265 r_nbd_other 0.239 r_symmetry_hbond_refined 0.204 r_nbd_refined 0.201 r_xyhbond_nbd_refined 0.138 r_symmetry_vdw_refined 0.13 r_chiral_restr 0.083 r_nbtor_other 0.079 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2753 Nucleic Acid Atoms Solvent Atoms 391 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing