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Crystal Structure of an Isethionate bound Substrate Binding Protein (IseP) from an Isethionate TRAP Transporter
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-Q312S0-F1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 Sodium nitrate, PEG 3350
Crystal Properties Matthews coefficient Solvent content 1.85 33.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.2 α = 90 b = 83.21 β = 90 c = 91.91 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 PIXEL DECTRIS EIGER X 16M 2023-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95372 Australian Synchrotron MX2
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 1.25 46.9 98.7 0.102 0.104 0.02 1 23.9 48.5 150942
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 1.25 1.27 1.613 1.692 0.504 0.763 21.3
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 1.25 46.9 150942 7483 98.592 0.147 0.1461 0.1688 0.1783 18.852
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] -0.433 0.937 -0.505
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.79 r_dihedral_angle_3_deg 12.562 r_dihedral_angle_2_deg 8.314 r_dihedral_angle_1_deg 6.074 r_lrange_it 5.524 r_lrange_other 5.409 r_scangle_it 4.409 r_scangle_other 4.403 r_scbond_it 3.018 r_scbond_other 2.884
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.79 r_dihedral_angle_3_deg 12.562 r_dihedral_angle_2_deg 8.314 r_dihedral_angle_1_deg 6.074 r_lrange_it 5.524 r_lrange_other 5.409 r_scangle_it 4.409 r_scangle_other 4.403 r_scbond_it 3.018 r_scbond_other 2.884 r_mcangle_other 2.072 r_mcangle_it 2.071 r_angle_refined_deg 2.014 r_mcbond_it 1.412 r_mcbond_other 1.41 r_angle_other_deg 0.647 r_nbd_refined 0.229 r_nbd_other 0.199 r_symmetry_nbd_refined 0.188 r_symmetry_nbd_other 0.184 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.166 r_symmetry_xyhbond_nbd_refined 0.15 r_chiral_restr 0.102 r_symmetry_nbtor_other 0.077 r_symmetry_xyhbond_nbd_other 0.071 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4851 Nucleic Acid Atoms Solvent Atoms 615 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement REFMAC refinement MOLREP phasing XDS data reduction Aimless data scaling