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Crystal Structure of Sea Bream Transthyretin in complex with Triiodothyronine at 1.90A Resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 296 PEG 1550 MME, sodium citrate, ammonium sulphate, nickel sulphate, crystals were soaked in triiodothyronine, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.1 41.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.284 α = 90 b = 58.284 β = 90 c = 138.904 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 1.9 20 98.8 0.054 36032 36032
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 1.9 1.97 96.6 0.434
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 (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.9 19.76 36032 31100 3405 95.86 0.1765 0.17658 0.1729 0.1838 0.21081 RANDOM 16.591
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] -0.62 -0.62 1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.357 r_dihedral_angle_1_deg 4.008 r_scangle_it 3.018 r_scbond_it 1.813 r_mcangle_it 1.508 r_angle_refined_deg 1.444 r_angle_other_deg 0.868 r_mcbond_it 0.808 r_symmetry_hbond_refined 0.607 r_symmetry_vdw_other 0.332
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.357 r_dihedral_angle_1_deg 4.008 r_scangle_it 3.018 r_scbond_it 1.813 r_mcangle_it 1.508 r_angle_refined_deg 1.444 r_angle_other_deg 0.868 r_mcbond_it 0.808 r_symmetry_hbond_refined 0.607 r_symmetry_vdw_other 0.332 r_symmetry_vdw_refined 0.324 r_nbd_other 0.219 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.177 r_chiral_restr 0.083 r_xyhbond_nbd_other 0.079 r_gen_planes_other 0.011 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3529 Nucleic Acid Atoms Solvent Atoms 336 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing