☰ Navigation Tabs
Crystal Structure of Lactococcus lactis Thioredoxin Reductase (FR conformation)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F6M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 35% PEG 1500, 400 mM Li2SO4, 20 mM HEPES
Crystal Properties Matthews coefficient Solvent content 3.23 61.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.54 α = 90 b = 120.54 β = 90 c = 60.47 γ = 90
Symmetry Space Group P 41 21 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 PIXEL DECTRIS PILATUS3 2M Automatic data collection on ESRF Massif1 ID30A-1 2015-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.96501 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.14 85.24 99.9 0.127 12.3 8.38 25158
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.22 100 1.744 1.3 8.46
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 1F6M 2.14 49.37 23920 1195 99.89 0.1796 0.1767 0.1851 0.2373 0.2427 RANDOM 43.954
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] 0.26 0.26 -0.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.098 r_dihedral_angle_4_deg 22.482 r_dihedral_angle_3_deg 16.542 r_dihedral_angle_1_deg 7.146 r_mcangle_it 4.818 r_mcbond_it 3.538 r_mcbond_other 3.531 r_angle_refined_deg 1.985 r_angle_other_deg 0.844 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.098 r_dihedral_angle_4_deg 22.482 r_dihedral_angle_3_deg 16.542 r_dihedral_angle_1_deg 7.146 r_mcangle_it 4.818 r_mcbond_it 3.538 r_mcbond_other 3.531 r_angle_refined_deg 1.985 r_angle_other_deg 0.844 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2347 Nucleic Acid Atoms Solvent Atoms 166 Heterogen Atoms 118
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling MOLREP phasing