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Structure of a non-canonical ABC transporter from Streptococcus pneumoniae R6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F3O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 285 0.2 M ammonium sulfate, 0.1 M sodium acetate, 25-31% v/v PEG 550 MME, 0.01 M Cadmium chloride
Crystal Properties Matthews coefficient Solvent content 3.89 68.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.053 α = 90 b = 154.987 β = 90 c = 205.892 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 6M 2017-03-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NFPSS BEAMLINE BL19U1 0.97775 NFPSS BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.3 50 100 13.3 13.5 34560
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.3 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1F3O 3.3 50 32666 1727 99.22 0.23643 0.23363 0.2345 0.28922 0.2893 RANDOM 82.664
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] 2.44 2.22 -4.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.487 r_dihedral_angle_3_deg 17.55 r_dihedral_angle_4_deg 13.476 r_long_range_B_refined 8.258 r_long_range_B_other 8.258 r_dihedral_angle_1_deg 6.827 r_mcangle_it 5.541 r_mcangle_other 5.54 r_scangle_other 4.998 r_mcbond_it 3.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.487 r_dihedral_angle_3_deg 17.55 r_dihedral_angle_4_deg 13.476 r_long_range_B_refined 8.258 r_long_range_B_other 8.258 r_dihedral_angle_1_deg 6.827 r_mcangle_it 5.541 r_mcangle_other 5.54 r_scangle_other 4.998 r_mcbond_it 3.313 r_mcbond_other 3.313 r_scbond_it 2.88 r_scbond_other 2.879 r_angle_refined_deg 1.298 r_angle_other_deg 0.96 r_chiral_restr 0.071 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9269 Nucleic Acid Atoms Solvent Atoms 16 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing