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Crystal Structure of the FK506-Binding Domain of Plasmodium Falciparum FKBP35 in complex with Rapamycin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VN1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 0.1M MIB, 25% PEG1500, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.73 29.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.812 α = 90 b = 48.7 β = 90 c = 58.933 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 PIXEL PSI PILATUS 6M 2014-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.8726 ESRF ID23-2
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 1.44 37.54 97.8 19370 2 6.6
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 (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 2VN1 1.44 37.54 19370 18930 940 97.77 0.1531 0.1498 0.1502 0.2156 0.2158 RANDOM 16.654
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] -0.76 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.68 r_sphericity_free 25.273 r_dihedral_angle_4_deg 15.409 r_dihedral_angle_3_deg 14.164 r_dihedral_angle_1_deg 6.56 r_sphericity_bonded 6.536 r_rigid_bond_restr 6.426 r_mcangle_it 2.076 r_angle_refined_deg 1.813 r_mcbond_it 1.766
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.68 r_sphericity_free 25.273 r_dihedral_angle_4_deg 15.409 r_dihedral_angle_3_deg 14.164 r_dihedral_angle_1_deg 6.56 r_sphericity_bonded 6.536 r_rigid_bond_restr 6.426 r_mcangle_it 2.076 r_angle_refined_deg 1.813 r_mcbond_it 1.766 r_mcbond_other 1.755 r_angle_other_deg 1.493 r_chiral_restr 0.712 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 959 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DNA data collection MOSFLM data reduction SCALA data scaling MOLREP phasing