7WQ7

The 0.87 angstrom X-ray structure of the human heart fatty acid-binding protein complexed with nonadecanoic 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 (pH8.0), 55% PEG 400
Crystal Properties
Matthews coefficientSolvent content
2.1843.56

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.609α = 90
b = 69.762β = 90
c = 33.908γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2013-05-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.8000SPring-8BL44XU

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
10.874398.10.05811.212.4105027
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
10.870.890.4034.9

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 REPLACEMENTTHROUGHOUT3WVM0.8728.8299540522897.760.104480.104160.11072RANDOM10.021
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]
0.05-0.04-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.488
r_rigid_bond_restr17.829
r_dihedral_angle_4_deg14.136
r_dihedral_angle_3_deg11.107
r_long_range_B_refined8.774
r_scbond_it8.608
r_scbond_other8.602
r_long_range_B_other8.491
r_scangle_other6.973
r_dihedral_angle_1_deg6.431
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.488
r_rigid_bond_restr17.829
r_dihedral_angle_4_deg14.136
r_dihedral_angle_3_deg11.107
r_long_range_B_refined8.774
r_scbond_it8.608
r_scbond_other8.602
r_long_range_B_other8.491
r_scangle_other6.973
r_dihedral_angle_1_deg6.431
r_mcangle_it5.042
r_mcangle_other5.041
r_mcbond_it4.839
r_mcbond_other4.838
r_angle_refined_deg2.165
r_angle_other_deg1.69
r_chiral_restr0.098
r_bond_refined_d0.021
r_bond_other_d0.018
r_gen_planes_refined0.011
r_gen_planes_other0.004
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 AtomsNumber
Protein Atoms1041
Nucleic Acid Atoms
Solvent Atoms219
Heterogen Atoms40

Software

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