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Crystal structure of the transthyretin mutant A108Y/L110E solved in space group C2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SOK PDB ENTRY 1SOK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 291 Tris, PEG550MME, ammonium sulfate, sodium citrate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.3 46.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.287 α = 90 b = 67.524 β = 112.59 c = 80.978 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAC Science DIP-2030 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591
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 2.1 20 95.4 0.077 13.8 4.7 29735
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 2.1 2.17 92.7 0.407 2.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1SOK 2.1 20 29735 28177 1423 0.212 0.21 0.2211 0.246 RANDOM 22.25
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.824 r_dihedral_angle_1_deg 3.544 r_scangle_it 2.856 r_scbond_it 1.721 r_mcangle_it 1.364 r_angle_refined_deg 1.251 r_angle_other_deg 0.755 r_mcbond_it 0.736 r_nbd_other 0.22 r_nbd_refined 0.214
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.824 r_dihedral_angle_1_deg 3.544 r_scangle_it 2.856 r_scbond_it 1.721 r_mcangle_it 1.364 r_angle_refined_deg 1.251 r_angle_other_deg 0.755 r_mcbond_it 0.736 r_nbd_other 0.22 r_nbd_refined 0.214 r_symmetry_vdw_other 0.182 r_symmetry_hbond_refined 0.161 r_symmetry_vdw_refined 0.15 r_xyhbond_nbd_refined 0.125 r_chiral_restr 0.075 r_xyhbond_nbd_other 0.033 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_gen_planes_other 0.002 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 3602 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement DENZO data reduction CNS phasing