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Evaluation of Synthetic FK506 Analogs as Ligands for the FK506-Binding Proteins 51 and 52: Complex of FKBP51 with 2-(3-((R)-3-(3,4-dimethoxyphenyl)-1-((S)-1-(2-((1R,2S)-2-ethyl-1-hydroxy-cyclohexyl)-2-oxoacetyl)piperidine-2-carbonyloxy)propyl)phenoxy)acetic acid from cocrystallization
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3O5Q PDB ENTRY 3O5Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 293 37.5 % PEG3350, 0.1 M NH4OAc, 0.1 M HEPES pH 7.5, 10 % DMSO, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.9 57.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.913 α = 90 b = 56.563 β = 90 c = 57.589 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 CCD ADSC QUANTUM 315r 2010-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.900 ESRF ID23-1
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 1.792 25.386 97.5 0.062 0.062 12.4 3.3 15448 15448 20.88
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 1.79 1.89 84 0.19 0.19 3.9 2.3 1862
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3O5Q 1.8 20 14853 14559 769 98.02 0.2221 0.2221 0.22 0.2609 0.2749 RANDOM 20.0242
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] 0.14 -0.09 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.48 r_dihedral_angle_4_deg 18.585 r_dihedral_angle_3_deg 11.543 r_dihedral_angle_1_deg 6.547 r_scangle_it 2.927 r_scbond_it 1.876 r_angle_refined_deg 1.472 r_mcangle_it 1.164 r_mcbond_it 0.68 r_chiral_restr 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.48 r_dihedral_angle_4_deg 18.585 r_dihedral_angle_3_deg 11.543 r_dihedral_angle_1_deg 6.547 r_scangle_it 2.927 r_scbond_it 1.876 r_angle_refined_deg 1.472 r_mcangle_it 1.164 r_mcbond_it 0.68 r_chiral_restr 0.1 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 986 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 46
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling