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Crystal structure of thyroxine-binding globulin complexed with thyroxine-fluoresein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2RIV PDB ENTRY 2RIV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.4 20% PEG3350, PH 5.4
Crystal Properties Matthews coefficient Solvent content 2.35 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.69 α = 90 b = 42.14 β = 90 c = 56.1 γ = 90
Symmetry Space Group P 21 21 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 1.28 29.41 96.2 0.07 9.2 3.6 95941 2
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 1.28 1.35 95.7 0.64 2.5 3.6
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 PDB ENTRY 2RIV 1.29 86.34 95941 5049 95.89 0.20858 0.20725 0.2226 0.23453 0.248 RANDOM 17.609
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] -0.33 1.05 -0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.547 r_dihedral_angle_3_deg 11.136 r_dihedral_angle_4_deg 9.901 r_dihedral_angle_1_deg 5.869 r_scangle_it 2.479 r_scbond_it 1.568 r_angle_refined_deg 1.187 r_mcangle_it 1.036 r_angle_other_deg 0.774 r_mcbond_it 0.538
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.547 r_dihedral_angle_3_deg 11.136 r_dihedral_angle_4_deg 9.901 r_dihedral_angle_1_deg 5.869 r_scangle_it 2.479 r_scbond_it 1.568 r_angle_refined_deg 1.187 r_mcangle_it 1.036 r_angle_other_deg 0.774 r_mcbond_it 0.538 r_mcbond_other 0.124 r_chiral_restr 0.066 r_bond_refined_d 0.006 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_mcangle_other r_scbond_other 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 2927 Nucleic Acid Atoms Solvent Atoms 305 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling PHASER phasing