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Crystal structure of dha bind to bovine beta-lactoglobulin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GJ5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 289 1.34M trisodium citrate, 0.1M Tris
Crystal Properties Matthews coefficient Solvent content 2.36 47.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.49 α = 90 b = 52.49 β = 90 c = 108.39 γ = 120
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 DECTRIS PILATUS3 S 6M 2017-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17B1 0.97775 SSRF BL17B1
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 2.5 50 98.4 0.085 24 9.7 11464
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 2GJ5 2.61 45.46 9490 477 97.93 0.20207 0.19992 0.2051 0.24389 0.2429 RANDOM 45.897
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] 0.02 0.01 0.02 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.836 r_dihedral_angle_4_deg 23.157 r_dihedral_angle_3_deg 19.613 r_long_range_B_refined 8.992 r_long_range_B_other 8.955 r_dihedral_angle_1_deg 7.988 r_mcangle_it 5.353 r_mcangle_other 5.353 r_scangle_other 4.812 r_mcbond_it 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.836 r_dihedral_angle_4_deg 23.157 r_dihedral_angle_3_deg 19.613 r_long_range_B_refined 8.992 r_long_range_B_other 8.955 r_dihedral_angle_1_deg 7.988 r_mcangle_it 5.353 r_mcangle_other 5.353 r_scangle_other 4.812 r_mcbond_it 3.11 r_mcbond_other 3.103 r_scbond_it 2.826 r_scbond_other 2.824 r_angle_refined_deg 1.651 r_angle_other_deg 1.054 r_chiral_restr 0.098 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2459 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling BALBES phasing