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De Novo Design of Polynuclear Transition Metal Clusters in Helix Bundles-4EH1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EH1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.2 M NaCl, 6% (v/v) isopropanol and 0.1 M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 4.75 74.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.828 α = 90 b = 80.828 β = 90 c = 64.388 γ = 120
Symmetry Space Group P 31 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 ADSC QUANTUM 315r 2014-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1
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 1.6 70 99.9 0.086 25.9 10.8 32467
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 1.6 1.66 100 0.763 2.9 10.6
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 4EH1 1.6 70 30810 1631 99.81 0.14829 0.14728 0.1616 0.16721 0.1759 RANDOM 27.925
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] -1.48 -0.74 -1.48 4.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.471 r_sphericity_free 35.109 r_dihedral_angle_3_deg 13.173 r_dihedral_angle_4_deg 12.455 r_sphericity_bonded 8.081 r_dihedral_angle_1_deg 3.64 r_long_range_B_refined 2.305 r_angle_other_deg 1.517 r_long_range_B_other 1.32 r_angle_refined_deg 1.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.471 r_sphericity_free 35.109 r_dihedral_angle_3_deg 13.173 r_dihedral_angle_4_deg 12.455 r_sphericity_bonded 8.081 r_dihedral_angle_1_deg 3.64 r_long_range_B_refined 2.305 r_angle_other_deg 1.517 r_long_range_B_other 1.32 r_angle_refined_deg 1.094 r_scangle_other 0.796 r_scbond_it 0.633 r_scbond_other 0.632 r_rigid_bond_restr 0.55 r_mcangle_it 0.539 r_mcangle_other 0.538 r_mcbond_it 0.406 r_mcbond_other 0.405 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 912 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing