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Crystal Structure of human FABP4 in complex with (1S,2S,5R)-3-(2-thiophen-3-ylacetyl)-3-azabicyclo[3.1.0]hexane-2-carboxylic acid, i.e. SMILES OC(=O)[C@@H]1[C@H]2C[C@H]2CN1C(=O)Cc3ccsc3 with IC50=1.7 microM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other inhouse model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 protein in 25mM Tris/HCl pH 7.5 100mM NaCl, see also PMID 27658368
Crystal Properties Matthews coefficient Solvent content 2.17 43.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.19 α = 90 b = 53.666 β = 90 c = 75.318 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 PIXEL PSI PILATUS 6M 2011-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) CC (Half) 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 1.12 37.66 97.6 0.072 0.072 0.076 0.996 11.79 5.36 49470 13.949
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.12 1.15 90.6 0.299 0.337 0.94 4.48 4.317
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 inhouse model 1.12 37.66 46055 2460 95.85 0.1421 0.1412 0.1425 0.1586 0.1593 RANDOM 11.13
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] -0.19 -0.38 0.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.079 r_dihedral_angle_4_deg 18.72 r_sphericity_free 13.966 r_dihedral_angle_3_deg 12.036 r_sphericity_bonded 8.43 r_dihedral_angle_1_deg 6.327 r_rigid_bond_restr 5.81 r_angle_refined_deg 2.122 r_angle_other_deg 1.407 r_chiral_restr 0.129
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.079 r_dihedral_angle_4_deg 18.72 r_sphericity_free 13.966 r_dihedral_angle_3_deg 12.036 r_sphericity_bonded 8.43 r_dihedral_angle_1_deg 6.327 r_rigid_bond_restr 5.81 r_angle_refined_deg 2.122 r_angle_other_deg 1.407 r_chiral_restr 0.129 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d 0.005 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1040 Nucleic Acid Atoms Solvent Atoms 180 Heterogen Atoms 27
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing