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Crystal structure of FK506 binding domain of plasmodium VIVAX FKBP35 In complex with inhibitor D5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IHZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 291 3.0M AMMONIUM SULPHATE, 0.1M BICINE, pH 9.0, 30mM Glycl-Glycl-Glycine, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.07 40.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.45 α = 90 b = 46.01 β = 117.37 c = 55.1 γ = 90
Symmetry Space Group I 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 IMAGE PLATE RIGAKU RAXIS IV++ MIRRORS 2011-11-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.72 33.52 99 0.034 18.3 3.5 12119
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.72 1.81 94.1 0.162 5 2.9 1662
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 3IHZ 1.72 20 11028 1070 98.86 0.20318 0.19997 0.23529 0.2672 RANDOM 30.681
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] -0.44 0.45 1.68 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.64 r_dihedral_angle_4_deg 22.237 r_dihedral_angle_3_deg 13.896 r_dihedral_angle_1_deg 6.587 r_scangle_it 4.09 r_scbond_it 2.546 r_mcangle_it 1.768 r_angle_refined_deg 1.557 r_mcbond_it 0.975 r_chiral_restr 0.095
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.64 r_dihedral_angle_4_deg 22.237 r_dihedral_angle_3_deg 13.896 r_dihedral_angle_1_deg 6.587 r_scangle_it 4.09 r_scbond_it 2.546 r_mcangle_it 1.768 r_angle_refined_deg 1.557 r_mcbond_it 0.975 r_chiral_restr 0.095 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 943 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms 22
Software Software Software Name Purpose PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling