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Crystal structure of barley thioredoxin h isoform 1 crystallized using PEG as precipitant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EP7 PDB ENTRY 1EP7
Crystallization Crystal Properties Matthews coefficient Solvent content 2.27 45.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.726 α = 90 b = 33.663 β = 112.48 c = 132.202 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R
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 1.8 20.6 99.3 0.07 6.5 2.9 46412
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 1.8 1.9 99.8 0.35 2.1 2.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 1EP7 1.8 20.36 44058 2352 99.4 0.198 0.195 0.1932 0.249 RANDOM 24.67
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] 0.05 0.01 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.919 r_dihedral_angle_4_deg 22.687 r_dihedral_angle_3_deg 13.605 r_dihedral_angle_1_deg 5.315 r_scangle_it 3.362 r_scbond_it 2.209 r_angle_refined_deg 1.342 r_mcangle_it 1.255 r_mcbond_it 0.821 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.919 r_dihedral_angle_4_deg 22.687 r_dihedral_angle_3_deg 13.605 r_dihedral_angle_1_deg 5.315 r_scangle_it 3.362 r_scbond_it 2.209 r_angle_refined_deg 1.342 r_mcangle_it 1.255 r_mcbond_it 0.821 r_nbtor_refined 0.299 r_nbd_refined 0.208 r_symmetry_vdw_refined 0.185 r_symmetry_hbond_refined 0.158 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.1 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3329 Nucleic Acid Atoms Solvent Atoms 544 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement