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1.35 Angstrom Resolution Crystal Structure of a Pullulanase-specific Type II Secretion System Integral Cytoplasmic Membrane Protein GspL (N-terminal fragment; residues 1-237) from Klebsiella pneumoniae.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 Protein: 8.9 mg/ml, 0.5M Sodium chloride, 0.1M Tris HCl (pH 8.3);Screen: Classics II (A5), 2.0M Ammonium sulfate, 0.1M HEPES (pH 7.5);Cryo: 2.0M Ammonium sulfate, 25% Sucrose.
Crystal Properties Matthews coefficient Solvent content 1.98 37.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.901 α = 90 b = 81.579 β = 90 c = 40.231 γ = 90
Symmetry Space Group P 21 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 300 mm CCD C(111) 2016-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 1.35 30 99.4 0.069 0.069 45.9 6.7 46935 -3 16.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.37 95.4 0.733 0.629 2.03 3.8
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 1.35 29.75 44414 2324 99.44 0.1478 0.14631 0.1453 0.17629 0.176 RANDOM 21.587
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] -0.83 1.12 -0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.212 r_sphericity_free 31.621 r_dihedral_angle_3_deg 10.416 r_dihedral_angle_4_deg 10.169 r_sphericity_bonded 7.615 r_dihedral_angle_1_deg 4.503 r_long_range_B_refined 3.327 r_long_range_B_other 2.872 r_scangle_other 1.79 r_mcangle_it 1.697
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.212 r_sphericity_free 31.621 r_dihedral_angle_3_deg 10.416 r_dihedral_angle_4_deg 10.169 r_sphericity_bonded 7.615 r_dihedral_angle_1_deg 4.503 r_long_range_B_refined 3.327 r_long_range_B_other 2.872 r_scangle_other 1.79 r_mcangle_it 1.697 r_mcangle_other 1.697 r_angle_refined_deg 1.49 r_scbond_it 1.392 r_scbond_other 1.384 r_mcbond_other 1.299 r_mcbond_it 1.298 r_rigid_bond_restr 1.096 r_angle_other_deg 0.89 r_chiral_restr 0.1 r_gen_planes_refined 0.021 r_gen_planes_other 0.017 r_bond_refined_d 0.008 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1853 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing