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Crystal structure of oxidized glutaredoxin 2 from Chlamydomonas reinhardtii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FLS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 277 30% (w/v) PEG 8000
0.1 M sodium cacodylate pH 6.5
0.2 M sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.73 54.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.383 α = 90 b = 45.383 β = 90 c = 104.238 γ = 120
Symmetry Space Group P 32 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 AGILENT ATLAS CCD 2013-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION SUPERNOVA 1.540562
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.4 14.7 99.1 0.108 0.118 0.046 12.3 6 5212 21.36
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.53 0.378 0.435 0.206 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2FLS 2.4 14.3 1.34 5182 236 99.44 0.1986 0.1972 0.1976 0.2294 0.231 24.53
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.0456 f_angle_d 0.4209 f_chiral_restr 0.0399 f_bond_d 0.0017 f_plane_restr 0.0016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 794 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 4
Software Software Software Name Purpose CrysalisPro data collection CrysalisPro data reduction CrysalisPro data scaling Coot model building MOLREP phasing PHENIX refinement