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Crystal Structure Analysis of the NUR77 Ligand Binding Domain, S441W mutant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.2 277 PEG4000, Sodium citrate, Glycerol, pH 4.2, vapor diffusion, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.17 61.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.542 α = 90 b = 76.183 β = 90 c = 128.095 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 MARMOSAIC 325 mm CCD 2014-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 1.5418 SSRF BL17U
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 1.99 50 91.9 0.071 13.9 3.4 43304 -3 -3
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 2.03 2.07 86.3 0.341 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.99 33.94 47120 2259 93.38 0.18787 0.18589 0.1922 0.22732 0.2344 RANDOM 40.431
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] 1.01 -0.23 -0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.958 r_dihedral_angle_4_deg 19.67 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 5.81 r_mcangle_it 5.33 r_scbond_it 4.902 r_mcbond_it 3.95 r_mcbond_other 3.95 r_angle_refined_deg 1.926 r_angle_other_deg 1.523
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.958 r_dihedral_angle_4_deg 19.67 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 5.81 r_mcangle_it 5.33 r_scbond_it 4.902 r_mcbond_it 3.95 r_mcbond_other 3.95 r_angle_refined_deg 1.926 r_angle_other_deg 1.523 r_chiral_restr 0.16 r_bond_refined_d 0.02 r_gen_planes_refined 0.013 r_bond_other_d 0.007 r_gen_planes_other 0.007 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3668 Nucleic Acid Atoms Solvent Atoms 342 Heterogen Atoms 18
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASES phasing