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Structure of the red fluorescent protein mScarlet3 at pH 7.5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LK4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1 M sodium chloride, 0.1 M, 0.1 M HEPES pH 7.5, 1.6 M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 1.77 30.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.231 α = 90 b = 61.862 β = 90 c = 110.933 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 DECTRIS PILATUS3 6M 2020-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9686 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (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 1.33 42.78 97.5 0.097 0.994 6 3.8 91873 16.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.33 1.38 99.1 0.929 0.548 0.7
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 5LK4 1.33 42.78 90993 1157 97.27 0.2004 0.2001 0.2093 0.2283 0.2387 RANDOM 18.863
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] -1.15 1.6 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.264 r_dihedral_angle_4_deg 22.787 r_dihedral_angle_3_deg 12.901 r_dihedral_angle_1_deg 7.514 r_angle_refined_deg 1.817 r_angle_other_deg 1.406 r_chiral_restr 0.081 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.264 r_dihedral_angle_4_deg 22.787 r_dihedral_angle_3_deg 12.901 r_dihedral_angle_1_deg 7.514 r_angle_refined_deg 1.817 r_angle_other_deg 1.406 r_chiral_restr 0.081 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3483 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms
Software Software Software Name Purpose XDS data reduction XDS data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction