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Structure of a far-red induced allophycocyanin from Chroococcidiopsis thermalis sp. PCC 7203
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4PO5 experimental model PDB 1KN1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 289 0.5 M ammonium sulfate, 0.1 M sodium citrate tribasic dihydrate, pH 5.6, 1.0 M lithium sulfate monohydrate
Crystal Properties Matthews coefficient Solvent content 3.57 65.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.54 α = 90 b = 130.54 β = 90 c = 106.496 γ = 120
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 EIGER2 S 9M 2022-01-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.97918 SSRF BL02U1
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 2.57 77.52 100 0.091 1 20.3 18.5 32743
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 2.57 2.71 100 1.217 0.843 2.5 16.9
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 2.8 77.52 24255 1240 99.98 0.18093 0.17775 0.1823 0.24016 0.2377 RANDOM 75.646
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] -0.17 -0.08 -0.17 0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 23.577 r_dihedral_angle_2_deg 15.249 r_long_range_B_refined 15.045 r_long_range_B_other 15.045 r_scangle_other 12.358 r_mcangle_it 10.2 r_mcangle_other 10.199 r_scbond_it 9.098 r_scbond_other 8.921 r_mcbond_it 7.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 23.577 r_dihedral_angle_2_deg 15.249 r_long_range_B_refined 15.045 r_long_range_B_other 15.045 r_scangle_other 12.358 r_mcangle_it 10.2 r_mcangle_other 10.199 r_scbond_it 9.098 r_scbond_other 8.921 r_mcbond_it 7.63 r_mcbond_other 7.626 r_dihedral_angle_1_deg 4.776 r_angle_refined_deg 1.511 r_angle_other_deg 0.506 r_chiral_restr 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.002 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 4986 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 191
Software Software Software Name Purpose REFMAC refinement xia2 data reduction pointless data scaling ARP/wARP phasing