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The 0.90 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with linoleic 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 293 0.1M Hepes-NaOH (pH7.5), 60% PEG 400 or 0.1M Glycine-NaOH (pH9.0), 60% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.15 42.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.62 α = 90 b = 69.733 β = 90 c = 33.617 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 MX225HE 2012-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.75000 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 0.9 43 99.5 0.065 9.1 11.9 95206
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 0.9 0.92 0.387 3.2
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 0.9 30.3 90365 4773 99.4 0.11902 0.11863 0.1183 0.12647 0.1255 RANDOM 11.289
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] 0.1 -0.05 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.463 r_dihedral_angle_4_deg 13.962 r_dihedral_angle_3_deg 12.02 r_rigid_bond_restr 11.733 r_scangle_other 8.188 r_long_range_B_refined 7.179 r_scbond_it 7.034 r_scbond_other 7.016 r_long_range_B_other 6.996 r_dihedral_angle_1_deg 6.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.463 r_dihedral_angle_4_deg 13.962 r_dihedral_angle_3_deg 12.02 r_rigid_bond_restr 11.733 r_scangle_other 8.188 r_long_range_B_refined 7.179 r_scbond_it 7.034 r_scbond_other 7.016 r_long_range_B_other 6.996 r_dihedral_angle_1_deg 6.004 r_mcbond_it 5.783 r_mcbond_other 5.756 r_mcangle_other 5.104 r_mcangle_it 5.086 r_angle_refined_deg 2.298 r_angle_other_deg 1.656 r_chiral_restr 0.11 r_bond_refined_d 0.021 r_gen_planes_refined 0.013 r_bond_other_d 0.004 r_gen_planes_other 0.004 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 1039 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing