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The 0.88 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with alpha-llinolenic 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 277 0.1M MES-NaOH (pH6.5), 55% PEG 400 or 0.1M Tris-HCl (pH8.0), 50% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.16 43.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.691 α = 90 b = 69.979 β = 90 c = 33.614 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 270 2014-02-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.94000 Photon Factory BL-17A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 0.88 50 99.4 0.045 5.8 6.1 102261
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.88 0.9 0.226 2.3
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 0.88 28.65 97088 5109 99.36 0.11619 0.11574 0.1223 0.12464 0.1344 RANDOM 10.001
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] 0.23 -0.19 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.554 r_dihedral_angle_3_deg 15.341 r_rigid_bond_restr 13.741 r_dihedral_angle_4_deg 12.351 r_dihedral_angle_1_deg 6.378 r_scbond_it 5.543 r_scbond_other 5.543 r_scangle_other 4.704 r_long_range_B_refined 4.247 r_long_range_B_other 4.035
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.554 r_dihedral_angle_3_deg 15.341 r_rigid_bond_restr 13.741 r_dihedral_angle_4_deg 12.351 r_dihedral_angle_1_deg 6.378 r_scbond_it 5.543 r_scbond_other 5.543 r_scangle_other 4.704 r_long_range_B_refined 4.247 r_long_range_B_other 4.035 r_angle_refined_deg 2.345 r_mcangle_other 1.833 r_mcangle_it 1.822 r_angle_other_deg 1.648 r_mcbond_it 1.581 r_mcbond_other 1.581 r_chiral_restr 0.103 r_bond_refined_d 0.024 r_gen_planes_refined 0.013 r_bond_other_d 0.01 r_gen_planes_other 0.01 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 1044 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 71
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing