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peroxide-bound diCo-sulerythrin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J30
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291.15 0.1 M Bis-Tris (pH 5.5) and 20-25% (w/v) PEG3350
Crystal Properties Matthews coefficient Solvent content 2.32 46.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.539 α = 90 b = 72.539 β = 90 c = 98.912 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 PILATUS3 S 6M 2017-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.17 38.96 99.96 0.994 16.2 11.11 99787
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 1.17 1.21 0.627
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 1J30 1.28 38.86 74918 795 99.89 0.1363 0.13589 0.1353 0.17405 0.1727 RANDOM 17.869
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] -0.32 -0.16 -0.32 1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.567 r_dihedral_angle_4_deg 15.406 r_dihedral_angle_3_deg 13.195 r_dihedral_angle_1_deg 4.392 r_rigid_bond_restr 4.355 r_scangle_other 3.402 r_scbond_it 3.297 r_scbond_other 3.297 r_long_range_B_refined 3.194 r_long_range_B_other 3.136
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.567 r_dihedral_angle_4_deg 15.406 r_dihedral_angle_3_deg 13.195 r_dihedral_angle_1_deg 4.392 r_rigid_bond_restr 4.355 r_scangle_other 3.402 r_scbond_it 3.297 r_scbond_other 3.297 r_long_range_B_refined 3.194 r_long_range_B_other 3.136 r_mcangle_it 2.102 r_mcangle_other 2.102 r_angle_refined_deg 1.885 r_mcbond_it 1.769 r_mcbond_other 1.757 r_angle_other_deg 1.72 r_chiral_restr 0.098 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.005 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2241 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing