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Crystal structure of a truncated form of FkpA from Escherichia coli, in complex with immunosuppressant FK506
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FD9 FkpA (individual N- and C-domains)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 290 PEG 2000, sodium acetate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.6 52.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.14 α = 90 b = 85.44 β = 90 c = 159.57 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 110 CCD ADSC QUANTUM 4 2003-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
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 2.25 30 91.4 0.076 0.068 7.1 4.4 22702 22702 -3 39.47
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 2.25 2.37 81.2 0.259 0.22 2.1 3.4 2744
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 rigid-body refinement THROUGHOUT FkpA (individual N- and C-domains) 2.25 30 21956 21956 700 90.63 0.2079 0.2079 0.20642 0.2181 0.25344 0.2552 RANDOM 24.929
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] -1.08 3.3 -2.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 17.025 r_dihedral_angle_1_deg 4.043 r_scangle_it 3.075 r_scbond_it 1.939 r_mcangle_it 1.838 r_angle_refined_deg 1.758 r_angle_other_deg 1.13 r_mcbond_it 1.111 r_nbtor_other 0.333 r_nbd_refined 0.237
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 17.025 r_dihedral_angle_1_deg 4.043 r_scangle_it 3.075 r_scbond_it 1.939 r_mcangle_it 1.838 r_angle_refined_deg 1.758 r_angle_other_deg 1.13 r_mcbond_it 1.111 r_nbtor_other 0.333 r_nbd_refined 0.237 r_xyhbond_nbd_other 0.234 r_symmetry_vdw_other 0.222 r_nbd_other 0.216 r_symmetry_hbond_refined 0.196 r_symmetry_vdw_refined 0.191 r_xyhbond_nbd_refined 0.184 r_chiral_restr 0.109 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3224 Nucleic Acid Atoms Solvent Atoms 230 Heterogen Atoms 114
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling AMoRE phasing