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High-resolution neutron and X-ray joint refined structure of high-potential iron-sulfur protein in the oxidized state
X-RAY DIFFRACTION - NEUTRON DIFFRACTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5WQQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 293 1.8M ammonium sulfate, 0.1M Na citrate buffer
Crystal Properties Matthews coefficient Solvent content 1.83 32.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.334 α = 90 b = 58.855 β = 90 c = 23.548 γ = 90
Symmetry Space Group P 21 21 21
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 2014-06-10 M SINGLE WAVELENGTH 2 1 neutron 100 DIFFRACTOMETER iBIX 2014-05-13 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 0.7500 Photon Factory BL-5A 2 SPALLATION SOURCE J-PARC MLF BEAMLINE BL-03 2.00-4.40 JPARC MLF BL-03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (All) 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 0.66 50 96.3 0.059 45.4 7.4 117107 3.81 2 1.2 20 94.9 0.21 6 4.8 19669 3.81
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) R Split (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.66 0.67 0.272 4.5 4.8 2 1.2 1.24 0.4 2.1 2.5
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 0.66 36.41 1.51 117020 5799 96.3 0.074 0.074 0.0742 0.082 0.0818 NEUTRON DIFFRACTION MOLECULAR REPLACEMENT 1.2 15.07 19667 94.6 0.154 0.154 0.168
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 616 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 68
Software Software Software Name Purpose PHENIX refinement SCALA data scaling MOLREP phasing HKL-2000 data collection