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Crystal structure of the PNAG binding module PgaA-TPR 220-359
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 300 15% w/v PEG 8000, 0.1 M Tris pH 7.1, 200 mM MgCl2, and 3% w/v cadaverine
Crystal Properties Matthews coefficient Solvent content 2.85 61.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.67 α = 90 b = 60.67 β = 90 c = 185.52 γ = 120
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 315r 2013-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.979 NSLS X29A
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 2.85 20.001 99.4 0.121 28.8 21.6 8565
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 2.85 2.95 0.634
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.85 20.001 8362 499 92.469 0.237 0.2347 0.2289 0.2643 0.2493 49.606
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] -1.598 -0.799 -1.598 5.184
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.137 r_dihedral_angle_3_deg 19.091 r_dihedral_angle_4_deg 15.061 r_dihedral_angle_1_deg 5.795 r_lrange_it 4.794 r_lrange_other 4.794 r_mcangle_it 2.475 r_mcangle_other 2.474 r_scangle_it 2.053 r_scangle_other 2.053
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.137 r_dihedral_angle_3_deg 19.091 r_dihedral_angle_4_deg 15.061 r_dihedral_angle_1_deg 5.795 r_lrange_it 4.794 r_lrange_other 4.794 r_mcangle_it 2.475 r_mcangle_other 2.474 r_scangle_it 2.053 r_scangle_other 2.053 r_angle_refined_deg 1.424 r_mcbond_it 1.395 r_mcbond_other 1.391 r_angle_other_deg 1.231 r_scbond_it 1.137 r_scbond_other 1.137 r_nbd_other 0.291 r_nbd_refined 0.226 r_symmetry_nbd_refined 0.204 r_symmetry_xyhbond_nbd_refined 0.201 r_symmetry_nbd_other 0.2 r_xyhbond_nbd_refined 0.175 r_nbtor_refined 0.168 r_ncsr_local_group_1 0.131 r_symmetry_nbtor_other 0.084 r_chiral_restr 0.06 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2125 Nucleic Acid Atoms Solvent Atoms 19 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELXDE phasing