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o-crystal structure of the PPIase domain of FKBP52, Rapamycin and the FRB fragment of mTOR
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FAP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 0.1M BisTris, 1.95M (NH4)2SO4, pH 6.5, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.39 48.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.523 α = 90 b = 62.989 β = 90 c = 70.142 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 2008-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9788 ESRF ID29
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 1.8 70.186 99 0.044 0.044 16.2 3.5 24366 24366 30.34
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 1.8 1.9 98.9 0.35 0.35 2.2 3.6 3510
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3FAP 1.8 19.76 24338 23105 1233 98.61 0.1901 0.1901 0.1883 0.1863 0.2247 0.226 RANDOM 40.58
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] -0.02 0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.766 r_dihedral_angle_4_deg 17.345 r_dihedral_angle_3_deg 16.796 r_dihedral_angle_1_deg 5.86 r_scangle_it 2.46 r_scbond_it 1.654 r_angle_refined_deg 1.287 r_mcangle_it 0.933 r_mcbond_it 0.691 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.766 r_dihedral_angle_4_deg 17.345 r_dihedral_angle_3_deg 16.796 r_dihedral_angle_1_deg 5.86 r_scangle_it 2.46 r_scbond_it 1.654 r_angle_refined_deg 1.287 r_mcangle_it 0.933 r_mcbond_it 0.691 r_nbtor_refined 0.307 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.169 r_symmetry_hbond_refined 0.148 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1705 Nucleic Acid Atoms Solvent Atoms 151 Heterogen Atoms 70
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction