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Photo-Induced Distance-Dependent Electron Transfer of Fluorescent Proteins- PsmO-Cu66-water-anom (PSmOrange-copper-pH6.6-water-anom)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9X8H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.2M NaCl, 20-28%
PEG3350
Crystal Properties Matthews coefficient Solvent content 2.18 43.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.838 α = 90 b = 83.354 β = 111.94 c = 39.264 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 2023-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL10U2 1.37345 SSRF BL10U2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.53 34.19 85.7 0.068 0.991 10 2.8 28284
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.53 1.61 0.322 0.617
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 1.53 34.19 26792 1457 85.57 0.20493 0.20291 0.2135 0.2429 0.2507 RANDOM 16.352
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] -1.66 2.39 -3.85 2.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.15 r_dihedral_angle_3_deg 16.313 r_dihedral_angle_4_deg 14.625 r_rigid_bond_restr 10.226 r_dihedral_angle_1_deg 8.927 r_long_range_B_refined 3.328 r_long_range_B_other 3.293 r_scangle_other 3.082 r_scbond_it 2.627 r_scbond_other 2.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.15 r_dihedral_angle_3_deg 16.313 r_dihedral_angle_4_deg 14.625 r_rigid_bond_restr 10.226 r_dihedral_angle_1_deg 8.927 r_long_range_B_refined 3.328 r_long_range_B_other 3.293 r_scangle_other 3.082 r_scbond_it 2.627 r_scbond_other 2.625 r_mcangle_it 2.268 r_mcangle_other 2.267 r_mcbond_it 1.906 r_mcbond_other 1.906 r_angle_refined_deg 1.67 r_angle_other_deg 1.401 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_bond_other_d 0.003 r_gen_planes_other 0.002 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1801 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing PDB_EXTRACT data extraction