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Energetic and structural effects of the Tanford transition on the ligand recognition of bovine Beta-lactoglobulin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BEB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277.15 0.1 M NaCl, pH 4.5 and in 0.05 M Tris-HCl, 0.1 M NaCl, pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.54 51.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.652 α = 90 b = 53.652 β = 90 c = 112.021 γ = 120
Symmetry Space Group P 32 2 1
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 PILATUS 200K 2018-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.74 46.46 99.6 0.89 83.2 14.1 19905
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.74 1.77 0.89
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1BEB 1.74 46.46 19788 1012 99.592 0.195 0.1931 0.2005 0.2286 0.2367 32.581
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] 0.47 0.235 0.47 -1.526
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.957 r_dihedral_angle_3_deg 15.923 r_dihedral_angle_1_deg 7.571 r_lrange_it 6.645 r_lrange_other 6.608 r_dihedral_angle_4_deg 5.129 r_scangle_it 4.804 r_scangle_other 4.801 r_mcangle_it 3.538 r_mcangle_other 3.536
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.957 r_dihedral_angle_3_deg 15.923 r_dihedral_angle_1_deg 7.571 r_lrange_it 6.645 r_lrange_other 6.608 r_dihedral_angle_4_deg 5.129 r_scangle_it 4.804 r_scangle_other 4.801 r_mcangle_it 3.538 r_mcangle_other 3.536 r_scbond_it 3.097 r_scbond_other 3.095 r_mcbond_other 2.359 r_mcbond_it 2.358 r_angle_refined_deg 2.222 r_angle_other_deg 1.497 r_symmetry_nbd_refined 0.21 r_nbd_refined 0.202 r_nbd_other 0.196 r_symmetry_nbd_other 0.187 r_nbtor_refined 0.164 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.122 r_symmetry_xyhbond_nbd_refined 0.114 r_symmetry_nbtor_other 0.092 r_bond_refined_d 0.019 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1221 Nucleic Acid Atoms Solvent Atoms 115 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing