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Crystal structure of tetrameric RXRalpha-LBD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G1U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 100mM Tris, pH6.5, 10% PEG 4000, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.53 51.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.828 α = 90 b = 100.271 β = 90 c = 47.157 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 IMAGE PLATE RIGAKU RAXIS IV++ 2009-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.9 29.72 10888
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 1G1U 2.9 15 10878 557 91.07 0.22627 0.22227 0.2236 0.30755 0.2993 RANDOM 22.193
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] -0.57 -0.97 1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.04 r_dihedral_angle_4_deg 22.239 r_dihedral_angle_3_deg 21.298 r_dihedral_angle_1_deg 6.45 r_scangle_it 2.125 r_angle_refined_deg 1.527 r_scbond_it 1.293 r_mcangle_it 0.981 r_mcbond_it 0.548 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.04 r_dihedral_angle_4_deg 22.239 r_dihedral_angle_3_deg 21.298 r_dihedral_angle_1_deg 6.45 r_scangle_it 2.125 r_angle_refined_deg 1.527 r_scbond_it 1.293 r_mcangle_it 0.981 r_mcbond_it 0.548 r_nbtor_refined 0.318 r_symmetry_vdw_refined 0.256 r_nbd_refined 0.249 r_symmetry_hbond_refined 0.217 r_xyhbond_nbd_refined 0.187 r_chiral_restr 0.102 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 3040 Nucleic Acid Atoms Solvent Atoms 34 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection CNS refinement REFMAC refinement d*TREK data reduction d*TREK data scaling CNS phasing