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Superfolder green fluorescent protein with phosphine unnatural amino acid P3BF
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B3P 2B3P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 0.2 M Potassium Citrate, 20% PEG3350, pH 8.3
Crystal Properties Matthews coefficient Solvent content 3.98 69.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.603 α = 90 b = 87.603 β = 90 c = 114.571 γ = 90
Symmetry Space Group P 41 21 2
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 2021-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97915 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.95 47.94 98.3 0.145 0.161 0.07 0.998 11 9.5 44896
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2 99.9 1.349 0.469 0.75 9.8
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 2B3P 1.95 42.093 32512 1628 97.954 0.161 0.1597 0.1617 0.1912 0.1931 41.568
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] 0.759 0.759 -1.517
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.953 r_dihedral_angle_4_deg 17.308 r_dihedral_angle_3_deg 15.011 r_lrange_it 8.927 r_dihedral_angle_1_deg 6.916 r_scangle_it 5.6 r_scbond_it 3.528 r_mcangle_it 2.837 r_mcbond_it 1.935 r_angle_refined_deg 1.344
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.953 r_dihedral_angle_4_deg 17.308 r_dihedral_angle_3_deg 15.011 r_lrange_it 8.927 r_dihedral_angle_1_deg 6.916 r_scangle_it 5.6 r_scbond_it 3.528 r_mcangle_it 2.837 r_mcbond_it 1.935 r_angle_refined_deg 1.344 r_nbtor_refined 0.306 r_nbd_refined 0.21 r_symmetry_xyhbond_nbd_refined 0.179 r_symmetry_nbd_refined 0.166 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.079 r_gen_planes_refined 0.006 r_bond_refined_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1908 Nucleic Acid Atoms Solvent Atoms 368 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PHASER phasing Aimless data scaling XDS data reduction