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Crystal structure of human TAK1/TAB1 fusion protein in complex with ligand 3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2EVA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 294 1.94M sodium potassium phosphate, 20%(v/v) Glycerol as cryoprotectant
Crystal Properties Matthews coefficient Solvent content 3.84 67.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.07 α = 90 b = 132.96 β = 90 c = 141.46 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 270 2009-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1.0000 Photon Factory BL-17A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.89 48.441 99.8 0.142 0.153 0.057 12.7 7.1 12633 12633
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 2.89 2.97 99.7 1.222 0.6 7.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 2EVA 2.89 48.44 12018 615 99.78 0.1994 0.1977 0.2013 0.2336 0.2345 RANDOM 64.998
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] -0.26 -0.07 0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.816 r_dihedral_angle_4_deg 15.707 r_dihedral_angle_3_deg 14.766 r_dihedral_angle_1_deg 5.658 r_mcangle_it 4.814 r_mcbond_other 2.735 r_mcbond_it 2.734 r_angle_refined_deg 1.178 r_angle_other_deg 0.877 r_chiral_restr 0.062
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.816 r_dihedral_angle_4_deg 15.707 r_dihedral_angle_3_deg 14.766 r_dihedral_angle_1_deg 5.658 r_mcangle_it 4.814 r_mcbond_other 2.735 r_mcbond_it 2.734 r_angle_refined_deg 1.178 r_angle_other_deg 0.877 r_chiral_restr 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2311 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 43
Software Software Software Name Purpose XDS data processing SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction