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transthyretin with tethered inhibitor on one monomer.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BZD PDB ENTRY 1BZD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 PEG 4000, calcium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.27 45.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.654 α = 90 b = 85.643 β = 90 c = 63.925 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 93 CCD ADSC QUANTUM 315 double crystal monochromator 2004-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.072 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.69 27.63 96.5 0.06 33.2 3.4 27493 26531
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.69 1.76 88.5 0.607 2.3 2.3 2795
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1BZD 1.69 27.63 27493 25202 1283 96.04 0.21783 0.21676 0.2295 0.23865 0.2474 RANDOM 15.538
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] 0.24 -0.22 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.175 r_scangle_it 4.194 r_scbond_it 2.628 r_mcangle_it 1.681 r_angle_refined_deg 1.552 r_mcbond_it 0.895 r_angle_other_deg 0.759 r_symmetry_vdw_other 0.278 r_nbd_other 0.276 r_symmetry_vdw_refined 0.223
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.175 r_scangle_it 4.194 r_scbond_it 2.628 r_mcangle_it 1.681 r_angle_refined_deg 1.552 r_mcbond_it 0.895 r_angle_other_deg 0.759 r_symmetry_vdw_other 0.278 r_nbd_other 0.276 r_symmetry_vdw_refined 0.223 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.196 r_symmetry_hbond_refined 0.168 r_nbtor_other 0.094 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_other 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1792 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CNS phasing