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The 0.93 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with tridecanoic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4TJZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.1M Tris-HCl (pH8.5), 55% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.18 43.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.537 α = 90 b = 69.529 β = 90 c = 34 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 RAYONIX MX300HE 2013-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.800 SPring-8 BL44XU
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 0.93 50 98.1 0.114 7.4 4.6 86062
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 0.93 0.95 0.398 2.8
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 4TJZ 0.93 24.32 81466 4291 97.78 0.12899 0.12822 0.1372 0.14321 0.1519 RANDOM 8.66
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] 0.24 -0.13 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.111 r_dihedral_angle_4_deg 14.99 r_dihedral_angle_3_deg 13.361 r_dihedral_angle_1_deg 7.078 r_rigid_bond_restr 4.194 r_long_range_B_refined 3.095 r_long_range_B_other 2.653 r_scbond_it 2.586 r_scbond_other 2.585 r_scangle_other 2.419
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.111 r_dihedral_angle_4_deg 14.99 r_dihedral_angle_3_deg 13.361 r_dihedral_angle_1_deg 7.078 r_rigid_bond_restr 4.194 r_long_range_B_refined 3.095 r_long_range_B_other 2.653 r_scbond_it 2.586 r_scbond_other 2.585 r_scangle_other 2.419 r_angle_refined_deg 2.108 r_angle_other_deg 1.608 r_mcangle_it 1.562 r_mcangle_other 1.562 r_mcbond_it 1.287 r_mcbond_other 1.254 r_chiral_restr 0.106 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_gen_planes_other 0.004 r_bond_other_d 0.001 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 1041 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing