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De novo designed homo-trimeric amantadine-binding protein
X-RAY DIFFRACTION - NEUTRON DIFFRACTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6N9H PDB entry 6N9HPDB entry 6N9H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 293 9% PEG6000, 0.1 M citric acid, pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.78 55.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.61 α = 90 b = 50.61 β = 90 c = 68.82 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 298 IMAGE PLATE RIGAKU 2017-12-09 M SINGLE WAVELENGTH 2 1 neutron 298 IMAGE PLATE MAATEL IMAGINE 2018-06-12 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5417 2 NUCLEAR REACTOR ORNL High Flux Isotope Reactor BEAMLINE CG4D 2.8-4.5 ORNL High Flux Isotope Reactor CG4D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (All) 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 1.92 68.82 100 0.09 23.2 17.8 7655 2 2.3 36.72 73.5 0.143 8.7 4 2639
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.92 9.02 2 2.5 7.27
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.923 36.969 1.38 7655 770 99.87 0.1777 0.1748 0.1797 0.2039 0.208 NEUTRON DIFFRACTION MOLECULAR REPLACEMENT 2.5 27.065 23.7 2639 261 75.34 0.2801 0.2771 0.3179
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.512 f_dihedral_angle_d 14.512 f_angle_d 2.001 f_angle_d 2.001 f_chiral_restr 0.073 f_chiral_restr 0.073 f_bond_d 0.013 f_bond_d 0.013 f_plane_restr 0.01 f_plane_restr 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 596 Nucleic Acid Atoms Solvent Atoms 41 Heterogen Atoms 12
Software Software Software Name Purpose PHENIX refinement LAUEGEN data reduction LSCALE data scaling PHASER phasing