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The 0.98 angstrom structure of the human FABP3 Y19F mutant complexed with palmitic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WVM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.1M Tris-HCl (pH 8.5), 50% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.18 43.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.588 α = 90 b = 69.726 β = 90 c = 33.938 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 315 2013-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.900 SPring-8 BL38B1
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 0.98 50 94.5 0.093 7.7 14.4 71003
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 0.98 1 0.393 5.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3WVM 0.98 22.22 67256 3568 94.3 0.10224 0.10147 0.102 0.11672 0.1175 RANDOM 9.948
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] -0.37 0.32 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.172 r_dihedral_angle_4_deg 17.532 r_dihedral_angle_3_deg 13.965 r_dihedral_angle_1_deg 6.846 r_rigid_bond_restr 4.573 r_long_range_B_refined 3.708 r_long_range_B_other 2.849 r_angle_refined_deg 2.279 r_scangle_other 2.073 r_scbond_it 1.995
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.172 r_dihedral_angle_4_deg 17.532 r_dihedral_angle_3_deg 13.965 r_dihedral_angle_1_deg 6.846 r_rigid_bond_restr 4.573 r_long_range_B_refined 3.708 r_long_range_B_other 2.849 r_angle_refined_deg 2.279 r_scangle_other 2.073 r_scbond_it 1.995 r_scbond_other 1.995 r_angle_other_deg 1.554 r_mcangle_other 1.48 r_mcangle_it 1.479 r_mcbond_it 1.149 r_mcbond_other 1.045 r_chiral_restr 0.109 r_bond_refined_d 0.02 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1040 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing