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Crystal structure of cell-death related nuclease 4 (CRN-4)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 277 0.2M sodium formate, 20% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 277K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 4.84 74.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.474 α = 90 b = 165.379 β = 90 c = 64.263 γ = 90
Symmetry Space Group P 21 21 2
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 2006-07-01 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 315 2006-09-22 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 0.999 NSRRC BL13B1 2 SYNCHROTRON NSRRC BEAMLINE BL13B1 0.978993,0.963960,0.979185 NSRRC BL13B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.5 30 96.3 0.052 21.5 4.3 45644 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.56 88.6 0.426 0.426 3.01 3.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.5 30 45644 43319 2301 96.31 0.20816 0.2061 0.2033 0.24681 0.2434 RANDOM 47.021
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] -1.44 1.4 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.961 r_dihedral_angle_3_deg 16.681 r_dihedral_angle_4_deg 15.127 r_dihedral_angle_1_deg 5.515 r_rigid_bond_restr 4.678 r_sphericity_free 3.388 r_scangle_it 2.493 r_sphericity_bonded 2.011 r_scbond_it 1.558 r_mcangle_it 1.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.961 r_dihedral_angle_3_deg 16.681 r_dihedral_angle_4_deg 15.127 r_dihedral_angle_1_deg 5.515 r_rigid_bond_restr 4.678 r_sphericity_free 3.388 r_scangle_it 2.493 r_sphericity_bonded 2.011 r_scbond_it 1.558 r_mcangle_it 1.154 r_angle_refined_deg 1.145 r_mcbond_it 0.663 r_nbtor_refined 0.306 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.143 r_symmetry_hbond_refined 0.119 r_chiral_restr 0.089 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4822 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELXS phasing