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Crystal structure of murine NF-kappaB inducing kinase (NIK) in complex with compound 1a
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 277 0.3-0.9M ammonium sulphate,
0.05-0.1M sodium citrate,
0.7-1.0M lithium sulphate
Crystal Properties Matthews coefficient Solvent content 3.06 59.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.829 α = 90 b = 143.829 β = 90 c = 45.614 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 PIXEL DECTRIS PILATUS 2M-F 2012-08-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
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 2.65 143.8 100 11.9 6.7 27695
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 2.65 2.78
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 MOLECULAR REPLACEMENT THROUGHOUT 2.65 143.8 26274 1408 99.93 0.19842 0.19577 0.1985 0.24914 0.2422 RANDOM 50.993
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] -2.64 -2.64 5.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.279 r_dihedral_angle_4_deg 15.527 r_dihedral_angle_3_deg 14.821 r_dihedral_angle_1_deg 5.785 r_long_range_B_refined 3.903 r_long_range_B_other 3.872 r_mcangle_it 1.88 r_mcangle_other 1.879 r_scangle_other 1.522 r_angle_refined_deg 1.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.279 r_dihedral_angle_4_deg 15.527 r_dihedral_angle_3_deg 14.821 r_dihedral_angle_1_deg 5.785 r_long_range_B_refined 3.903 r_long_range_B_other 3.872 r_mcangle_it 1.88 r_mcangle_other 1.879 r_scangle_other 1.522 r_angle_refined_deg 1.309 r_mcbond_it 1.02 r_mcbond_other 1.02 r_angle_other_deg 0.915 r_scbond_it 0.823 r_scbond_other 0.822 r_chiral_restr 0.065 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5054 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing