☰ Navigation Tabs
Crystal structure of yeast Thioredoxin1-glutathione mixed disulfide complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FA4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.4 298 2.2M Ammonium Sulfate, 0.1M Sodium Acetate, pH 4.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.21 44.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.53 α = 72.91 b = 38.81 β = 87.51 c = 41.7 γ = 60.58
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH mirrors 2008-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 1.8 33.31 92.73 0.033 31.9 3.9 17174 17174 1 1 13.7
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 1.8 1.9 89.3 0.057 22.5 3.8 2416
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2FA4 1.8 30 15396 15396 1774 92.74 0.18716 0.18716 0.18333 0.2199 0.2441 RANDOM 4.19
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] -0.12 0.25 0.23 -0.22 -0.37 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.461 r_dihedral_angle_3_deg 17.158 r_dihedral_angle_1_deg 5.32 r_scangle_it 3.076 r_scbond_it 1.896 r_angle_refined_deg 1.63 r_mcangle_it 0.859 r_mcbond_it 0.567 r_symmetry_vdw_refined 0.379 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.461 r_dihedral_angle_3_deg 17.158 r_dihedral_angle_1_deg 5.32 r_scangle_it 3.076 r_scbond_it 1.896 r_angle_refined_deg 1.63 r_mcangle_it 0.859 r_mcbond_it 0.567 r_symmetry_vdw_refined 0.379 r_nbtor_refined 0.306 r_symmetry_hbond_refined 0.244 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.143 r_chiral_restr 0.114 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1611 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 55
Software Software Software Name Purpose MAR345dtb data collection PHASES phasing REFMAC refinement MOSFLM data reduction SCALA data scaling