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Crystal Structure of S-nitrosated Human Thioredoxin Mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ERT PDB ENTRY 1ERT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 289 21% PEG 3350, 0.1 M sodium acetate, pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 1.89 34.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.008 α = 90 b = 26.038 β = 94.83 c = 51.09 γ = 90
Symmetry Space Group C 1 2 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 325 mm CCD RH COATED FLAT MIRROR, TOROIDAL FOCUSING MIRROR 2012-01-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9795 SSRL BL9-2
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 1.54 25.45 98.7 0.076 7.2 3 12978 12978 17.9
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 1.54 1.63 95.9 0.326 2.1 2.9 1837
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 (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 ENTRY 1ERT 1.54 25.45 12317 12317 632 98.2 0.19396 0.19131 0.2043 0.24836 0.2671 RANDOM 29.765
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] 0.06 -0.17 1.63 -1.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.64 r_dihedral_angle_3_deg 16.367 r_long_range_B_refined 7.366 r_long_range_B_other 7.308 r_dihedral_angle_1_deg 6.378 r_scangle_other 5.743 r_scbond_it 3.879 r_scbond_other 3.877 r_mcangle_it 3.371 r_mcangle_other 3.368
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.64 r_dihedral_angle_3_deg 16.367 r_long_range_B_refined 7.366 r_long_range_B_other 7.308 r_dihedral_angle_1_deg 6.378 r_scangle_other 5.743 r_scbond_it 3.879 r_scbond_other 3.877 r_mcangle_it 3.371 r_mcangle_other 3.368 r_mcbond_it 2.47 r_mcbond_other 2.465 r_angle_refined_deg 2.025 r_angle_other_deg 0.936 r_chiral_restr 0.129 r_bond_refined_d 0.021 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 823 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms
Software Software Software Name Purpose XDS data scaling MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALA data scaling