7FEK

The 1.05 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with perfluorooctanoic acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3WVM 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP82930.1M Tris-HCl (pH 8.0 or 8.5), 55% PEG 400
Crystal Properties
Matthews coefficientSolvent content
2.1442.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.689α = 90
b = 68.819β = 90
c = 33.752γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX225HE2014-11-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL38B10.90000SPring-8BL38B1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.055096.10.0450.01313.511.757949
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.051.070.3430.1154.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3WVM1.0515.7154990292596.120.118170.117150.1376RANDOM14.286
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]
-0.210.31-0.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.209
r_dihedral_angle_4_deg14.725
r_dihedral_angle_3_deg14.401
r_rigid_bond_restr11.494
r_scbond_it9.912
r_scbond_other9.907
r_long_range_B_refined7.625
r_long_range_B_other7.588
r_scangle_other7.237
r_dihedral_angle_1_deg6.831
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.209
r_dihedral_angle_4_deg14.725
r_dihedral_angle_3_deg14.401
r_rigid_bond_restr11.494
r_scbond_it9.912
r_scbond_other9.907
r_long_range_B_refined7.625
r_long_range_B_other7.588
r_scangle_other7.237
r_dihedral_angle_1_deg6.831
r_mcangle_it2.683
r_mcangle_other2.682
r_mcbond_it2.375
r_mcbond_other2.369
r_angle_refined_deg2.329
r_angle_other_deg1.647
r_chiral_restr0.123
r_bond_refined_d0.022
r_gen_planes_refined0.012
r_bond_other_d0.01
r_gen_planes_other0.005
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 AtomsNumber
Protein Atoms1041
Nucleic Acid Atoms
Solvent Atoms203
Heterogen Atoms70

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing