☰ Navigation Tabs
Crystal structure of recombinant rat selenoprotein thioredoxin reductase 1 with oxidized C-terminal tail
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EAN PDB ENTRY 3EAN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.1M HEPES, PEG 3350 15%, 12% of ethylene glycol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.77 55.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.231 α = 90 b = 137.754 β = 94 c = 168.954 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 MARMOSAIC 225 mm CCD mirrors 2007-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 0.908 MAX II I911-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.1 64 99.8 0.131 0.131 10.9 3.3 64804 64804 76
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 3.101 3.27 100 0.559 1.9 3
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3EAN 3.1 30 61139 61139 3276 99.34 0.25806 0.25806 0.2564 0.2607 0.28873 RANDOM 56.314
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] -0.11 -0.25 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.852 r_dihedral_angle_4_deg 21.978 r_dihedral_angle_3_deg 18.532 r_dihedral_angle_1_deg 7.837 r_scangle_it 1.724 r_angle_refined_deg 1.558 r_scbond_it 1.017 r_mcangle_it 0.839 r_mcbond_it 0.492 r_symmetry_vdw_refined 0.384
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.852 r_dihedral_angle_4_deg 21.978 r_dihedral_angle_3_deg 18.532 r_dihedral_angle_1_deg 7.837 r_scangle_it 1.724 r_angle_refined_deg 1.558 r_scbond_it 1.017 r_mcangle_it 0.839 r_mcbond_it 0.492 r_symmetry_vdw_refined 0.384 r_nbtor_refined 0.313 r_symmetry_hbond_refined 0.252 r_nbd_refined 0.228 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_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 22568 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 510
Software Software Software Name Purpose ProDC data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling