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Crystal structure of Putative lipid binding protein (YP_001304415.1) from Parabacteroides distasonis ATCC 8503 at 2.16 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 2.30M ammonium sulfate, 0.1M Bicine pH 8.0, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K 2 VAPOR DIFFUSION, SITTING DROP 8.29 277 2.50M ammonium sulfate, 0.1M Bicine pH 8.29, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 201.88 α = 90 b = 201.88 β = 90 c = 202.84 γ = 90
Symmetry Space Group P 41 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-07-08 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-07-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97886 SSRL BL11-1 2 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97886,0.91837 SSRL BL11-1
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 2.16 49.207 96.7 0.093 8.91 3.76 217900 -3 37.203
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 2.16 2.31 91.5 0.709 2.02
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 MAD THROUGHOUT 2.16 49.207 217881 10941 97.61 0.189 0.187 0.1864 0.21 0.2074 RANDOM 30.091
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] 0.19 0.19 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.999 r_dihedral_angle_3_deg 11.592 r_dihedral_angle_4_deg 10.796 r_dihedral_angle_1_deg 6.759 r_scangle_it 4.9 r_scbond_it 2.974 r_angle_refined_deg 1.598 r_mcangle_it 1.455 r_angle_other_deg 0.911 r_mcbond_it 0.697
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.999 r_dihedral_angle_3_deg 11.592 r_dihedral_angle_4_deg 10.796 r_dihedral_angle_1_deg 6.759 r_scangle_it 4.9 r_scbond_it 2.974 r_angle_refined_deg 1.598 r_mcangle_it 1.455 r_angle_other_deg 0.911 r_mcbond_it 0.697 r_mcbond_other 0.181 r_chiral_restr 0.093 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11166 Nucleic Acid Atoms Solvent Atoms 1727 Heterogen Atoms 221
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction autoSHARP phasing