☰ Navigation Tabs
Crystal structure of VDR-LBD/partial agonist complex: 22S-hexyl analogue
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 MOPS-Na, Na-Formate, PEG 4000, Ethyleneglycol
Crystal Properties Matthews coefficient Solvent content 2.16 42.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.477 α = 90 b = 43.447 β = 100.53 c = 42.317 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 CCD RIGAKU JUPITER 210 2009-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
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 2.2 50 98.1 35.3 3.6 14125
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.2 50 13166 694 98.1 0.21623 0.21394 0.2208 0.25993 0.2581 RANDOM 81.947
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] -4.5 1.7 3.65 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.533 r_dihedral_angle_3_deg 20.086 r_dihedral_angle_4_deg 19.592 r_long_range_B_refined 9.316 r_long_range_B_other 9.314 r_scangle_other 7.225 r_mcangle_it 6.197 r_mcangle_other 6.195 r_dihedral_angle_1_deg 4.761 r_scbond_it 4.567
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.533 r_dihedral_angle_3_deg 20.086 r_dihedral_angle_4_deg 19.592 r_long_range_B_refined 9.316 r_long_range_B_other 9.314 r_scangle_other 7.225 r_mcangle_it 6.197 r_mcangle_other 6.195 r_dihedral_angle_1_deg 4.761 r_scbond_it 4.567 r_scbond_other 4.565 r_mcbond_it 4.083 r_mcbond_other 4.075 r_angle_other_deg 3.366 r_angle_refined_deg 1.672 r_chiral_restr 0.083 r_gen_planes_other 0.027 r_bond_refined_d 0.013 r_gen_planes_refined 0.013 r_bond_other_d 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2005 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling