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Structure of yeast complex III with isoform-2 cytochrome c bound and definition of a minimal core interface for electron transfer.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KB9 PDB entries 1KB9 and 1YEA experimental model PDB 1YEA PDB entries 1KB9 and 1YEA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbatch (Paraffin oil) 7.5 277 1M Sucrose, 10% DMSO, 20mM Tris pH 7.5, 80mM NaCl, 0.05 % UM, 1 M stigmatellin, 5% PEG 4000, Microbatch (Paraffin oil), temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.45 72.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.54 α = 90 b = 162.97 β = 104.39 c = 194.23 γ = 90
Symmetry Space Group P 1 21 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 4 2004-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9340 ESRF ID14-1
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 2.5 20 92.7 0.66 12.7 3.2 290829 289871 36.9
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) 1 2.5 2.7 77.5 0.38 2.8 2.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 entries 1KB9 and 1YEA 2.5 19.97 290829 289871 14494 95.9 0.225 0.225 0.225 0.226 0.256 0.2554 RANDOM 57.9
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] 18.67 4.94 -9.65 -9.02
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.1 c_scangle_it 2.76 c_mcangle_it 2.28 c_scbond_it 1.86 c_mcbond_it 1.34 c_angle_deg 1.3 c_improper_angle_d 1.22 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 35342 Nucleic Acid Atoms Solvent Atoms 548 Heterogen Atoms 904
Software Software Software Name Purpose CNS refinement DNA data collection XDS data reduction XDS data scaling AMoRE phasing