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Crystal Structure Analysis of Thioredoxin from Thermus thermophilus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NW2 PDB ID 1NW2 A cahin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 4.8 291 Lithium sulfate, Sodium Acetate, pH 4.8, Micro batch, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.43 48.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.91 α = 90 b = 95.441 β = 91.41 c = 56.683 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 mirrors 2003-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 1.0 SPring-8 BL26B2
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 1.82 56.8 99.9 0.082 16 3.65 18770 18770
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 1.82 1.89 100 0.5 2.97 3.52 1851
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-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 ID 1NW2 A cahin 1.82 56.8 18056 18056 882 92.6 0.195 0.1897 0.236 0.2303 RANDOM 29.48
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] -3.992 -2.374 6.366
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.73 c_angle_deg 1.592 c_improper_angle_d 1.077 c_bond_d 0.0079
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1412 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 17
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling MOLREP phasing CNS refinement HKL-2000 data reduction