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Structure of TR-alfa bound to selective thyromimetic GC-1 in P212121 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BSX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.2 291 1.0M NaCac 0.1M NaH3OAc, pH 7.2, VAPOR DIFFUSION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 4.02 69.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.914 α = 90 b = 80.351 β = 90 c = 102.886 γ = 90
Symmetry Space Group P 21 21 21
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 MAR scanner 345 mm plate 2004-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU ULTRAX 18 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.85 31.47 98.7 0.059 0.059 7.8 8.2 47773 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.85 1.898 98.9 0.383 0.383 2 7.8 2964
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 1BSX 1.85 31.47 45966 2172 100 0.152 0.15 0.1755 0.188 0.195 RANDOM 29.418
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] 0.07 -0.36 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.429 r_scangle_it 6.155 r_scbond_it 4.262 r_angle_refined_deg 3.078 r_angle_other_deg 3.047 r_mcangle_it 2.813 r_mcbond_it 1.719 r_xyhbond_nbd_refined 0.275 r_nbd_refined 0.274 r_nbd_other 0.273
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.429 r_scangle_it 6.155 r_scbond_it 4.262 r_angle_refined_deg 3.078 r_angle_other_deg 3.047 r_mcangle_it 2.813 r_mcbond_it 1.719 r_xyhbond_nbd_refined 0.275 r_nbd_refined 0.274 r_nbd_other 0.273 r_symmetry_vdw_other 0.253 r_symmetry_hbond_refined 0.251 r_chiral_restr 0.171 r_nbtor_other 0.135 r_symmetry_vdw_refined 0.101 r_gen_planes_other 0.039 r_bond_refined_d 0.037 r_gen_planes_refined 0.026 r_bond_other_d 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2136 Nucleic Acid Atoms Solvent Atoms 477 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection MOSFLM data reduction SCALA data scaling AMoRE phasing