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De Novo Design of Polynuclear Transition Metal Clusters in Helix Bundles-4DH2
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 8.5 298 0.01 M NiCl2, 1.0 M Li2SO4 and 0.1 M Tris pH 8.5
Crystal Properties Matthews coefficient Solvent content 4.74 74.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.156 α = 90 b = 81.156 β = 90 c = 66.331 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 2015-03-31 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 1.95 48.24 99.8 0.179 7 7.5 17954
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 1.95 2.06 99.2 0.848 1.9 7.4
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 1.95 48.24 17954 474 99.68 0.17228 0.17159 0.1749 0.18747 0.2363 RANDOM 41.046
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] -10.65 -10.65 21.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 16.996 r_dihedral_angle_4_deg 16.622 r_dihedral_angle_1_deg 3.726 r_long_range_B_refined 1.39 r_long_range_B_other 1.388 r_angle_refined_deg 1.117 r_angle_other_deg 0.93 r_mcangle_it 0.254 r_mcangle_other 0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 16.996 r_dihedral_angle_4_deg 16.622 r_dihedral_angle_1_deg 3.726 r_long_range_B_refined 1.39 r_long_range_B_other 1.388 r_angle_refined_deg 1.117 r_angle_other_deg 0.93 r_mcangle_it 0.254 r_mcangle_other 0.254 r_scangle_other 0.251 r_mcbond_it 0.191 r_mcbond_other 0.191 r_scbond_it 0.165 r_scbond_other 0.165 r_chiral_restr 0.067 r_bond_refined_d 0.01 r_bond_other_d 0.004 r_gen_planes_refined 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 916 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing