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Crystal Structure of a Trimeric Cytochrome cb562 Assembly Induced by Nickel Coordination
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 100 mM Tris, 23% PEG 4000, 4.16 mM NiSO4, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.61 52.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.042 α = 90 b = 51.042 β = 90 c = 121.971 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 CCD Bruker Apex II 2008-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE SIEMENS 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.04 50 99.8 0.065 4.6 7513 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.04 2.14 99.7 0.492 3.1 970
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.04 25.52 7499 6918 519 99.11 0.22172 0.21735 0.2264 0.27806 RANDOM 28.472
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] 0.09 0.05 0.09 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.565 r_dihedral_angle_3_deg 18.885 r_dihedral_angle_4_deg 12.339 r_dihedral_angle_1_deg 5.848 r_scangle_it 3.898 r_scbond_it 2.829 r_angle_refined_deg 1.918 r_mcangle_it 1.547 r_mcbond_it 1.311 r_angle_other_deg 1.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.565 r_dihedral_angle_3_deg 18.885 r_dihedral_angle_4_deg 12.339 r_dihedral_angle_1_deg 5.848 r_scangle_it 3.898 r_scbond_it 2.829 r_angle_refined_deg 1.918 r_mcangle_it 1.547 r_mcbond_it 1.311 r_angle_other_deg 1.002 r_symmetry_vdw_other 0.312 r_mcbond_other 0.265 r_nbd_refined 0.239 r_symmetry_hbond_refined 0.224 r_symmetry_vdw_refined 0.214 r_xyhbond_nbd_refined 0.193 r_nbd_other 0.176 r_nbtor_refined 0.171 r_chiral_restr 0.118 r_nbtor_other 0.096 r_bond_refined_d 0.022 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 819 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement APEX data collection SAINT data reduction SADABS data scaling MOLREP phasing