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De Novo Photosynthetic Reaction Center Protein Variant Equipped with His-Tyr H-bond, Heme B, and Cd(II) ions
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 277 24% w/v PEG 1500, 70 mM CdCl2, 100 mM Na acetate
Crystal Properties Matthews coefficient Solvent content 1.83 32.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.485 α = 90 b = 25.876 β = 103.64 c = 73.708 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 CCD RIGAKU SATURN 944+ Osmic VariMax mirror 2015-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.02 71.63 97.3 0.051 0.055 0.999 25.98 6.705 10744 -3 25.547
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.02 2.07 71 0.101 0.12 0.983 9.46 3.347
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 2.08 71.63 9587 527 98.64 0.1869 0.1834 0.1883 0.2434 0.2451 RANDOM 31.833
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] 0.53 -0.27 0.94 -1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.432 r_dihedral_angle_4_deg 17.954 r_dihedral_angle_3_deg 15.39 r_dihedral_angle_1_deg 6.322 r_angle_refined_deg 1.782 r_angle_other_deg 1.027 r_chiral_restr 0.104 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_gen_planes_other 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.432 r_dihedral_angle_4_deg 17.954 r_dihedral_angle_3_deg 15.39 r_dihedral_angle_1_deg 6.322 r_angle_refined_deg 1.782 r_angle_other_deg 1.027 r_chiral_restr 0.104 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_gen_planes_other 0.004 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1587 Nucleic Acid Atoms Solvent Atoms 88 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling MOLREP phasing PDB_EXTRACT data extraction XDS data reduction SOLVE phasing