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Crystal structure of a multilayer-packed major light-harvesting complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RWT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 291 2 mg/ml DGDG, 100mM di-sodium cacodylate, 10-12%(w/v) PEG2000, 20-50mM zinc acetate , pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 7.97 84.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 199.195 α = 90 b = 115.097 β = 113.23 c = 109.597 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 173 CCD ADSC QUANTUM 315r 2012-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.6 50 100 0.082 15.2 3.7 69844 1 30.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 98.1 0.761 0.643 1.8 3.6
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 1RWT 2.6 43.45 1.35 60673 60663 3045 86.4 0.251 0.25 0.2417 0.258 0.2619
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] 5.9124 0.3 6.6287 -2.1755
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 22.318 f_angle_d 2.194 f_chiral_restr 0.118 f_bond_d 0.01 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4737 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 3123
Software Software Software Name Purpose HKL-2000 data collection PHASES phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling