☰ Navigation Tabs
Crystal structure of the reduced state of TRP14 from Schistosoma japonicum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289.15 5mM DTT, 0.2 M lithium sulfate monohydrate, 0.1 M HEPES (pH 5.5), and 25% polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.07 40.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.435 α = 90 b = 38.616 β = 90.044 c = 56.153 γ = 90
Symmetry Space Group P 1 2 1
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 2023-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97853 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.77 38.724 98.3 0.995 7.9 6.2 22103
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.77 1.82 0.482
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 MOLECULAR REPLACEMENT FREE R-VALUE 1.771 38.724 22102 1081 97.736 0.215 0.2116 0.217 0.2763 0.2727 35.604
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] 1.952 -0.109 -2.424 0.472
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.862 r_dihedral_angle_6_deg 13.017 r_lrange_other 7.786 r_lrange_it 7.784 r_dihedral_angle_1_deg 6.339 r_scangle_it 6.321 r_scangle_other 6.319 r_dihedral_angle_2_deg 4.879 r_mcangle_other 4.217 r_mcangle_it 4.203
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.862 r_dihedral_angle_6_deg 13.017 r_lrange_other 7.786 r_lrange_it 7.784 r_dihedral_angle_1_deg 6.339 r_scangle_it 6.321 r_scangle_other 6.319 r_dihedral_angle_2_deg 4.879 r_mcangle_other 4.217 r_mcangle_it 4.203 r_scbond_it 4.089 r_scbond_other 4.082 r_mcbond_it 2.903 r_mcbond_other 2.891 r_angle_refined_deg 1.616 r_angle_other_deg 0.546 r_nbd_refined 0.219 r_nbd_other 0.195 r_symmetry_nbd_other 0.191 r_xyhbond_nbd_refined 0.182 r_nbtor_refined 0.166 r_symmetry_nbd_refined 0.087 r_chiral_restr 0.08 r_symmetry_nbtor_other 0.08 r_symmetry_xyhbond_nbd_refined 0.055 r_ncsr_local_group_1 0.037 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 1938 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing