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Crystal structure of human TAK1/TAB1 fusion protein in complex with ligand 4
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 7.7 294 1.7M sodium potassium phosphate, 20%(v/v) Glycerol as cryoprotectant
Crystal Properties Matthews coefficient Solvent content 3.99 69.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.03 α = 90 b = 133.22 β = 90 c = 146.75 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 100 CCD ADSC QUANTUM 315r 2009-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0000 Photon Factory BL-5A
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 2.61 41.93 99.2 0.094 0.101 0.038 18.7 7.2 17613 17613
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 2.61 2.68 96.3 0.873 0.9 7.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2EVA 2.61 41.93 16721 892 99.21 0.1826 0.1806 0.221 0.2052 RANDOM 59.236
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] -6.06 -1.34 7.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.581 r_dihedral_angle_4_deg 16.837 r_dihedral_angle_3_deg 15.652 r_mcangle_it 8.368 r_dihedral_angle_1_deg 8.286 r_mcbond_other 5.424 r_mcbond_it 5.419 r_angle_refined_deg 1.95 r_angle_other_deg 1.087 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.581 r_dihedral_angle_4_deg 16.837 r_dihedral_angle_3_deg 15.652 r_mcangle_it 8.368 r_dihedral_angle_1_deg 8.286 r_mcbond_other 5.424 r_mcbond_it 5.419 r_angle_refined_deg 1.95 r_angle_other_deg 1.087 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2224 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 42
Software Software Software Name Purpose XDS data processing SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction