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Crystal structure of shaft pilin spaD from Lactobacillus rhamnosus GG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.1M MES pH 6.5, 30% w/v PEG 400
Crystal Properties Matthews coefficient Solvent content 4.22 70.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.412 α = 90 b = 76.264 β = 90 c = 400.703 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 225 mm CCD 2015-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.953720 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.27 200 87.1 0.046 0.051 0.021 0.999 18.1 5.9 39269
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.273 2.536 48.5 0.473 0.533 0.236 0.93 2.7 4.5
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 2.27 200 37274 1995 50.1 0.20348 0.20173 0.2144 0.23616 0.2479 RANDOM 51.045
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] -0.91 -1.26 2.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.59 r_dihedral_angle_3_deg 13.372 r_dihedral_angle_4_deg 9.435 r_dihedral_angle_1_deg 6.439 r_long_range_B_refined 4.006 r_long_range_B_other 3.982 r_mcangle_it 2.217 r_mcangle_other 2.217 r_scangle_other 2.149 r_mcbond_it 1.279
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.59 r_dihedral_angle_3_deg 13.372 r_dihedral_angle_4_deg 9.435 r_dihedral_angle_1_deg 6.439 r_long_range_B_refined 4.006 r_long_range_B_other 3.982 r_mcangle_it 2.217 r_mcangle_other 2.217 r_scangle_other 2.149 r_mcbond_it 1.279 r_mcbond_other 1.278 r_scbond_it 1.269 r_scbond_other 1.268 r_angle_refined_deg 1.203 r_angle_other_deg 0.853 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 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 6863 Nucleic Acid Atoms Solvent Atoms 359 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling autoSHARP phasing