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DUF3055 from Staphylococcus aureus adopts unique strategy for structural distinctiveness
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YI0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 1M (NH4)2SO4, 1%(w/v) PEG3350, 100 mM Bis-Tris pH 5.5
Crystal Properties Matthews coefficient Solvent content 5.46 77.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.658 α = 90 b = 105.658 β = 90 c = 451.97 γ = 120
Symmetry Space Group P 65 2 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 270 2011-02-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.99 Photon Factory BL-17A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 3.6 49.85 96.4 0.19 0.99 15.55 4.6 17719
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.6 3.66 0.6
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 MOLECULAR REPLACEMENT THROUGHOUT 3.61 49.85 16860 838 96.82 0.21508 0.21257 0.2362 0.26167 0.2631 RANDOM 119.44
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] 2.57 2.57 -5.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.087 r_dihedral_angle_3_deg 23.344 r_long_range_B_refined 22.191 r_long_range_B_other 22.189 r_scangle_other 17.902 r_mcangle_it 17.878 r_mcangle_other 17.875 r_dihedral_angle_4_deg 17.475 r_mcbond_it 12.063 r_mcbond_other 12.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.087 r_dihedral_angle_3_deg 23.344 r_long_range_B_refined 22.191 r_long_range_B_other 22.189 r_scangle_other 17.902 r_mcangle_it 17.878 r_mcangle_other 17.875 r_dihedral_angle_4_deg 17.475 r_mcbond_it 12.063 r_mcbond_other 12.059 r_scbond_it 11.908 r_scbond_other 11.906 r_dihedral_angle_1_deg 9.85 r_angle_refined_deg 1.715 r_angle_other_deg 1.272 r_chiral_restr 0.076 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4249 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing