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Crystal structure of the apo form of glutaredoxin C5 from Arabidopsis thaliana
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FZ9 PDB ENTRY 3FZ9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 277 1.6 M ammonium sulfate, 500 mM lithium chloride, Microbatch, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.86 34.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.527 α = 90 b = 39.02 β = 90 c = 37.603 γ = 90
Symmetry Space Group P 21 21 2
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 ADSC QUANTUM 315r mirrors 2010-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.97926 ESRF BM30A
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 1.2 33.25 94 0.052 21.9 7.5 26715
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 PDB ENTRY 3FZ9 1.2 33.25 26715 26715 1423 93.93 0.15029 0.15029 0.15029 0.17585 0.1819 RANDOM 18.551
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] 0.03 0.08 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.202 r_dihedral_angle_4_deg 26.133 r_dihedral_angle_3_deg 12.18 r_scangle_it 8.266 r_scbond_it 5.79 r_dihedral_angle_1_deg 5.787 r_mcangle_it 4.269 r_mcbond_it 2.932 r_rigid_bond_restr 2.775 r_angle_refined_deg 2.209
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.202 r_dihedral_angle_4_deg 26.133 r_dihedral_angle_3_deg 12.18 r_scangle_it 8.266 r_scbond_it 5.79 r_dihedral_angle_1_deg 5.787 r_mcangle_it 4.269 r_mcbond_it 2.932 r_rigid_bond_restr 2.775 r_angle_refined_deg 2.209 r_chiral_restr 0.134 r_bond_refined_d 0.025 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 784 Nucleic Acid Atoms Solvent Atoms 108 Heterogen Atoms 35
Software Software Software Name Purpose Xnemo data collection MOLREP phasing REFMAC refinement XDS data reduction SCALA data scaling