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Crystal structure of Putative cell adhesion protein (YP_001304840.1) from Parabacteroides distasonis ATCC 8503 at 2.05 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 277 0.1600M ammonium sulfate, 20.1000% polyethylene glycol 4000, 20.0000% Glycerol, 0.1M sodium acetate pH 4.0, NANODROP', VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.46 49.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.372 α = 90 b = 101.934 β = 90 c = 130.891 γ = 90
Symmetry Space Group P 21 21 21
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 2009-11-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97939,0.97922 SSRL BL9-2
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 2.05 47.493 99.7 0.108 10.91 54734 -3 25.062
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 2.05 2.12 99.8 0.729 2.1
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 2.05 47.493 54675 2786 99.75 0.173 0.17 0.1763 0.219 0.2242 RANDOM 20.807
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] 0.1 -0.13 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.862 r_dihedral_angle_4_deg 15.572 r_dihedral_angle_3_deg 13.908 r_scangle_it 6.789 r_dihedral_angle_1_deg 6.716 r_scbond_it 4.731 r_mcangle_it 2.997 r_mcbond_it 1.868 r_angle_refined_deg 1.512 r_angle_other_deg 0.896
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.862 r_dihedral_angle_4_deg 15.572 r_dihedral_angle_3_deg 13.908 r_scangle_it 6.789 r_dihedral_angle_1_deg 6.716 r_scbond_it 4.731 r_mcangle_it 2.997 r_mcbond_it 1.868 r_angle_refined_deg 1.512 r_angle_other_deg 0.896 r_mcbond_other 0.774 r_chiral_restr 0.095 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5651 Nucleic Acid Atoms Solvent Atoms 587 Heterogen Atoms 39
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