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Cold grown Pea Photosystem I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5L8R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 di-potassium phosphate, Tris, PEG400, glycerol, L-glutathione, octyl glucose neopentyl glycol
Crystal Properties Matthews coefficient Solvent content 5.73 78.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 190.197 α = 90 b = 201.786 β = 90 c = 213.614 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 80 PIXEL DECTRIS EIGER X 4M 2019-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0 SLS X06DA
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 3 50 98.8 0.326 0.997 5.8 7 162077 96.13
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.05 0.066
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 5L8R 3 49.63 1.33 150539 3139 91.67 0.24 0.2394 0.2391 0.2697 0.2691 123.94
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 24.9686 f_angle_d 1.7538 f_chiral_restr 0.0814 f_plane_restr 0.0074 f_bond_d 0.0048
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 25318 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 12105
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling MOLREP phasing