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Crystal Structure of Cyanobacterial PSI Monomer from T.elongatus at 6.5 A Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JB0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 277.15 no salt
Crystal Properties Matthews coefficient Solvent content 4.57 73.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 187.029 α = 90 b = 187.029 β = 90 c = 233.805 γ = 120
Symmetry Space Group P 32 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 100 CCD RAYONIX MX300HE 2015-07-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.90000 SPring-8 BL44XU
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 6.5 49.57 98.5 0.05486 29.58 10.7 9572 297.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 6.5 6.73 100 0.3354 7.39 11.3
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 (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 1JB0 6.5 49.57 9092 479 98.6 0.413 0.409 0.4078 0.486 0.4804 RANDOM 179.9
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] 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 42.827 r_long_range_B_other 42.827 r_dihedral_angle_2_deg 30.611 r_mcangle_it 18.245 r_mcangle_other 18.244 r_scangle_other 14.184 r_dihedral_angle_3_deg 13.72 r_dihedral_angle_4_deg 12.472 r_mcbond_it 10.171 r_mcbond_other 10.17
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 42.827 r_long_range_B_other 42.827 r_dihedral_angle_2_deg 30.611 r_mcangle_it 18.245 r_mcangle_other 18.244 r_scangle_other 14.184 r_dihedral_angle_3_deg 13.72 r_dihedral_angle_4_deg 12.472 r_mcbond_it 10.171 r_mcbond_other 10.17 r_scbond_it 7.356 r_scbond_other 7.355 r_dihedral_angle_1_deg 4.202 r_angle_other_deg 1.549 r_angle_refined_deg 1.472 r_chiral_restr 0.088 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17234 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing