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The crystal structure of a mouse Fab fragment TL1 in complex with a human Glucose-6-phosphate isomerase peptide 293-307
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Other model structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 300 0.2 M Calcium acetate hydrate, 0.1 M Sodium cacodylate trihydrate pH 6.5, 18% w/v Polyethylene glycol 8,000
Crystal Properties Matthews coefficient Solvent content 2.51 51.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.66 α = 90 b = 75.545 β = 90 c = 96.219 γ = 90
Symmetry Space Group P 2 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 2020-09-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.97625 MAX IV BioMAX
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 1.619 55.408 100 0.999 12.4 13.1 63532
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 1.62 8.87 0.666
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE model structure 1.619 55.408 63532 3038 99.994 0.199 0.1976 0.1976 0.2291 0.229 25.727
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] -0.017 0.028 -0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 18 r_dihedral_angle_2_deg 15.298 r_dihedral_angle_3_deg 14.465 r_lrange_it 7.371 r_lrange_other 7.313 r_dihedral_angle_1_deg 7.285 r_scangle_it 5.838 r_scangle_other 5.837 r_scbond_it 3.915 r_scbond_other 3.914
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 18 r_dihedral_angle_2_deg 15.298 r_dihedral_angle_3_deg 14.465 r_lrange_it 7.371 r_lrange_other 7.313 r_dihedral_angle_1_deg 7.285 r_scangle_it 5.838 r_scangle_other 5.837 r_scbond_it 3.915 r_scbond_other 3.914 r_mcangle_it 3.3 r_mcangle_other 3.299 r_mcbond_it 2.3 r_mcbond_other 2.3 r_angle_refined_deg 1.602 r_angle_other_deg 0.555 r_symmetry_nbd_refined 0.476 r_nbd_other 0.323 r_nbd_refined 0.3 r_symmetry_xyhbond_nbd_refined 0.291 r_symmetry_nbd_other 0.222 r_xyhbond_nbd_refined 0.202 r_nbtor_refined 0.176 r_symmetry_nbtor_other 0.089 r_chiral_restr 0.076 r_symmetry_xyhbond_nbd_other 0.023 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3345 Nucleic Acid Atoms Solvent Atoms 336 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling