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Photo-Induced Distance-Dependent Electron Transfer of Fluorescent Proteins- PsmO-Cd (PSmOrange-cadmium)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9X89
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.8 291 0.2M NaCl, 20-28%
PEG3350
Crystal Properties Matthews coefficient Solvent content 1.89 34.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.116 α = 90 b = 82.838 β = 115.72 c = 37.126 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 16M 2023-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL10U2 0.72046 SSRF BL10U2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 41.42 98.9 0.024 0.998 15 6 42596
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.39 0.146 0.883 4.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.35 41.42 40387 2148 98.6 0.18967 0.18866 0.1956 0.20905 0.2139 RANDOM 7.557
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] 0.16 -0.19 -0.07 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.98 r_dihedral_angle_1_deg 7.498 r_dihedral_angle_2_deg 6.155 r_long_range_B_refined 2.956 r_long_range_B_other 2.905 r_scangle_other 1.665 r_angle_refined_deg 1.33 r_scbond_it 1.037 r_scbond_other 1.035 r_mcangle_other 1.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.98 r_dihedral_angle_1_deg 7.498 r_dihedral_angle_2_deg 6.155 r_long_range_B_refined 2.956 r_long_range_B_other 2.905 r_scangle_other 1.665 r_angle_refined_deg 1.33 r_scbond_it 1.037 r_scbond_other 1.035 r_mcangle_other 1.001 r_mcangle_it 1 r_mcbond_it 0.605 r_mcbond_other 0.592 r_angle_other_deg 0.485 r_chiral_restr 0.078 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1840 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement xia2 data scaling MOLREP phasing PDB_EXTRACT data extraction DIALS data reduction