☰ Navigation Tabs
Crystal structure of the mixed disulfide intermediate between thioredoxin-like TlpAs(C110S) and subunit II of cytochrome c oxidase CoxBPD (C233S)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JFU PDB entriues 1JFU and 1m56 experimental model PDB 1M56 PDB entriues 1JFU and 1m56
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 292 20% PEG2000 MME, 0.8M formic acid/NaOH, 0.1 M Na-cacodylate
Crystal Properties Matthews coefficient Solvent content 2.39 48.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.83 α = 90 b = 81.64 β = 90 c = 109.37 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 77 PIXEL DECTRIS PILATUS 6M 2013-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (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 2 50 98.8 0.063 0.074 13.57 3.48 45680 -3 40.055
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 96.6 0.817 0.963 1.62
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 entriues 1JFU and 1m56 2 65.42 45680 2304 99.11 0.1654 0.1629 0.1722 0.2116 0.2147 RANDOM 39.402
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] -1.2 -0.65 1.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.669 r_dihedral_angle_4_deg 22.377 r_dihedral_angle_3_deg 16.154 r_dihedral_angle_1_deg 6.759 r_mcangle_it 4.317 r_mcbond_it 3.146 r_mcbond_other 3.145 r_angle_refined_deg 1.825 r_angle_other_deg 0.882 r_chiral_restr 0.115
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.669 r_dihedral_angle_4_deg 22.377 r_dihedral_angle_3_deg 16.154 r_dihedral_angle_1_deg 6.759 r_mcangle_it 4.317 r_mcbond_it 3.146 r_mcbond_other 3.145 r_angle_refined_deg 1.825 r_angle_other_deg 0.882 r_chiral_restr 0.115 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4823 Nucleic Acid Atoms Solvent Atoms 444 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling PDB_EXTRACT data extraction PHASER phasing REFMAC refinement XDS data reduction