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Crystal structure of putative membrane-associated protein of unknown function (YP_211325.1) from Bacteroides fragilis NCTC 9343 at 2.20 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 1.6000M (NH4)2SO4, 0.1M Citrate pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.28 71.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.621 α = 90 b = 107.621 β = 90 c = 89.296 γ = 120
Symmetry Space Group P 32 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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-12-07 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) R Sym 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 2.2 29.761 100 0.134 0.134 11.8 7.4 30727 37.005
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 100 0.931 0.931 2.2 7.5 2235
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 2.2 29.761 30702 1548 99.94 0.172 0.17 0.1849 0.206 0.2163 RANDOM 45.235
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] 1.4 0.7 1.4 -2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_3_deg 10.069 r_scangle_it 6.79 r_dihedral_angle_4_deg 5.727 r_scbond_it 4.528 r_dihedral_angle_1_deg 4.112 r_mcangle_it 2.348 r_angle_refined_deg 1.745 r_angle_other_deg 1.217 r_mcbond_it 1.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_3_deg 10.069 r_scangle_it 6.79 r_dihedral_angle_4_deg 5.727 r_scbond_it 4.528 r_dihedral_angle_1_deg 4.112 r_mcangle_it 2.348 r_angle_refined_deg 1.745 r_angle_other_deg 1.217 r_mcbond_it 1.148 r_mcbond_other 0.198 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2170 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing