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The 0.96 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with arachidic 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 8 277 0.1M Tris-HCl (pH8.0), 45% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.16 43.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.587 α = 90 b = 69.71 β = 90 c = 33.861 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 2013-07-09 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 0.96 42.97 98.2 0.054 10.3 10.8 78560
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 0.96 0.98 0.387 3.9
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 3WVM 0.96 22.2 74404 3931 97.83 0.11602 0.11502 0.13491 0.1428 RANDOM 11.873
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] 0.07 -0.08 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.285 r_rigid_bond_restr 26.389 r_dihedral_angle_4_deg 16.132 r_dihedral_angle_3_deg 14.739 r_dihedral_angle_1_deg 6.414 r_scbond_it 5.951 r_scbond_other 5.951 r_scangle_other 5.614 r_long_range_B_refined 4.088 r_long_range_B_other 3.863
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.285 r_rigid_bond_restr 26.389 r_dihedral_angle_4_deg 16.132 r_dihedral_angle_3_deg 14.739 r_dihedral_angle_1_deg 6.414 r_scbond_it 5.951 r_scbond_other 5.951 r_scangle_other 5.614 r_long_range_B_refined 4.088 r_long_range_B_other 3.863 r_angle_refined_deg 2.324 r_mcbond_it 2.321 r_mcangle_it 2.312 r_mcangle_other 2.311 r_mcbond_other 2.308 r_angle_other_deg 1.706 r_chiral_restr 0.116 r_bond_refined_d 0.024 r_gen_planes_refined 0.012 r_bond_other_d 0.005 r_gen_planes_other 0.003 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 211 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing