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Chimeric fluorescence biosensor formed from a lactate-binding protein and GFP, bound to lactate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5WBF experimental model PDB 6YLN Due to the chimeric nature of the construct represented in the current entry, the 6YLN model used for molecular replacement was split into two distinct models, one containing residues 1 through 145, and the other containing residues 150 through 238
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 296 citric acid, PEG 6000, 1,3-propanediol
Crystal Properties Matthews coefficient Solvent content 2.5 47.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.878 α = 90 b = 109.803 β = 110.14 c = 123.711 γ = 90
Symmetry Space Group P 1 21 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 EIGER X 9M 2024-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 0.920119 NSLS-II 17-ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim 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 2.78 45.94 95.44 0.1481 0.07007 0.992 7.4 4.6 55034
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.78 2.88 0.6888 0.7748 0.3447 0.826 1.82
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.78 45.94 1.33 54913 1996 95.34 0.2437 0.2422 0.2429 0.2848 0.2874
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 16.684 f_angle_d 1.356 f_chiral_restr 0.074 f_plane_restr 0.027 f_bond_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14571 Nucleic Acid Atoms Solvent Atoms 119 Heterogen Atoms 24
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling PHASER phasing