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Designed Artificial Cupredoxins - WT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QCB PDB entry 2QCB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 274 0.1 M sodium acetate, pH 4, 2.6 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.3 46.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.58 α = 90 b = 57.58 β = 90 c = 183.71 γ = 90
Symmetry Space Group I 41 2 2
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 2016-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1 ALS 8.2.1
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 1.72 54.94 99.7 1 12 7.9 16931
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 1.72 1.75 0.108 1
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 PDB entry 2QCB 1.72 54.94 16072 834 99.51 0.13601 0.13416 0.1487 0.16788 0.1799 RANDOM 21.139
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] 0.18 0.18 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.16 r_sphericity_free 22.272 r_sphericity_bonded 13.959 r_dihedral_angle_4_deg 13.812 r_dihedral_angle_3_deg 13.37 r_dihedral_angle_1_deg 7.223 r_scangle_other 6.163 r_long_range_B_refined 5.824 r_long_range_B_other 5.805 r_scbond_other 5.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.16 r_sphericity_free 22.272 r_sphericity_bonded 13.959 r_dihedral_angle_4_deg 13.812 r_dihedral_angle_3_deg 13.37 r_dihedral_angle_1_deg 7.223 r_scangle_other 6.163 r_long_range_B_refined 5.824 r_long_range_B_other 5.805 r_scbond_other 5.702 r_scbond_it 5.701 r_rigid_bond_restr 4.962 r_mcangle_other 3.987 r_mcangle_it 3.975 r_mcbond_it 3.126 r_mcbond_other 3.002 r_angle_refined_deg 2.584 r_angle_other_deg 1.139 r_chiral_restr 0.153 r_bond_refined_d 0.029 r_gen_planes_refined 0.012 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 924 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing