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Crystal structure of a functionally unknown protein (SO_1313) from Shewanella oneidensis MR-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 289 3.5M Na formate, 0.1M Tris-HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 4 69.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 147.816 α = 90 b = 147.816 β = 90 c = 117.687 γ = 90
Symmetry Space Group P 43 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 315 Mirrors 2007-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97929 APS 19-ID
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 2.3 47.78 99.9 0.126 29.7 13.9 58423 58423
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 2.3 2.35 99 0.931 2.5 10.6 3809
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.3 47.78 55302 55302 2943 99.74 0.17462 0.17462 0.17269 0.1714 0.21123 0.2106 RANDOM 41.465
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] -0.07 -0.07 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.579 r_dihedral_angle_4_deg 20.468 r_dihedral_angle_3_deg 16.025 r_dihedral_angle_1_deg 6.078 r_scangle_it 3.289 r_scbond_it 2.05 r_angle_refined_deg 1.407 r_mcangle_it 1.221 r_mcbond_it 0.711 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.579 r_dihedral_angle_4_deg 20.468 r_dihedral_angle_3_deg 16.025 r_dihedral_angle_1_deg 6.078 r_scangle_it 3.289 r_scbond_it 2.05 r_angle_refined_deg 1.407 r_mcangle_it 1.221 r_mcbond_it 0.711 r_nbtor_refined 0.299 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5616 Nucleic Acid Atoms Solvent Atoms 450 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELXD phasing MLPHARE phasing DM phasing RESOLVE phasing HKL-3000 phasing