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Crystal structure of protein of unknown function with ferritin-like fold (YP_832262.1) from Arthrobacter sp. FB24 at 2.33 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.47 293 20.0% polyethylene glycol 3350, 0.171M potassium sodium tartrate, 0.1M MES pH 6.47, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.6 α = 90 b = 96.71 β = 97.6 c = 71.2 γ = 90
Symmetry Space Group P 1 21 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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.33 29.54 97.4 0.067 0.083 10.67 5.65 35863 -3 46.71
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.33 2.41 96.2 0.612 0.755 1.85
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.33 29.54 35842 1786 99.54 0.213 0.21 0.214 0.262 0.2672 RANDOM 46.715
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] 0.28 0.18 -0.34 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.164 r_dihedral_angle_4_deg 15.697 r_dihedral_angle_3_deg 15.173 r_scangle_it 6.645 r_scbond_it 4.679 r_dihedral_angle_1_deg 3.592 r_mcangle_it 2.749 r_mcbond_it 1.657 r_angle_refined_deg 1.304 r_angle_other_deg 0.941
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.164 r_dihedral_angle_4_deg 15.697 r_dihedral_angle_3_deg 15.173 r_scangle_it 6.645 r_scbond_it 4.679 r_dihedral_angle_1_deg 3.592 r_mcangle_it 2.749 r_mcbond_it 1.657 r_angle_refined_deg 1.304 r_angle_other_deg 0.941 r_mcbond_other 0.371 r_symmetry_vdw_other 0.247 r_symmetry_vdw_refined 0.214 r_nbd_refined 0.202 r_nbd_other 0.185 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.165 r_symmetry_hbond_refined 0.138 r_nbtor_other 0.089 r_chiral_restr 0.07 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6583 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 98
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