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Crystal structure of a two-domain protein containing dj-1/thij/pfpi-like and ferritin-like domains (ava_4496) from anabaena variabilis atcc 29413 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.67 277 20.0% polyethylene glycol 6000, 0.15M magnesium acetate, 0.1M sodium cacodylate pH 6.67, NANODROP', VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.08 40.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.36 α = 90 b = 39.69 β = 93.04 c = 123.06 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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B APS 23-ID-B
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 1.9 29.975 97.4 0.052 8.92 52666 -3 29.913
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 1.9 1.97 98 0.507 1.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.9 29.975 52664 2676 99.41 0.178 0.176 0.219 0.2449 RANDOM 43.403
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] -0.58 -0.54 0.24 0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.789 r_dihedral_angle_4_deg 15.531 r_dihedral_angle_3_deg 11.871 r_scangle_it 4.893 r_scbond_it 3.797 r_dihedral_angle_1_deg 3.762 r_mcangle_it 2.05 r_angle_refined_deg 1.605 r_mcbond_it 1.448 r_angle_other_deg 1.359
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.789 r_dihedral_angle_4_deg 15.531 r_dihedral_angle_3_deg 11.871 r_scangle_it 4.893 r_scbond_it 3.797 r_dihedral_angle_1_deg 3.762 r_mcangle_it 2.05 r_angle_refined_deg 1.605 r_mcbond_it 1.448 r_angle_other_deg 1.359 r_mcbond_other 0.234 r_symmetry_vdw_other 0.204 r_nbd_refined 0.185 r_nbtor_refined 0.152 r_nbd_other 0.14 r_symmetry_vdw_refined 0.112 r_xyhbond_nbd_refined 0.105 r_chiral_restr 0.093 r_symmetry_hbond_refined 0.082 r_nbtor_other 0.073 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5183 Nucleic Acid Atoms Solvent Atoms 456 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing