☰ Navigation Tabs
Crystal structure of Fabs 7411 in complex with TREM2 peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Modeller
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 11% w/v PEG 8000, 240 mM ammonium sulfate, 100 mM MES
Crystal Properties Matthews coefficient Solvent content 2.02 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.65 α = 90 b = 71.76 β = 90 c = 105.53 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 2020-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000070 SLS X06SA
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 1.8 40 99.8 0.998 8.52 5.2 174028
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 1.8 1.85 94.7 0.565 2.7
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 MOLECULAR REPLACEMENT THROUGHOUT 1.8 38.96 33550 1766 95.2 0.17974 0.17772 0.1883 0.21786 0.2242 RANDOM 31.69
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] 0.8 -0.11 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.346 r_dihedral_angle_1_deg 7.558 r_long_range_B_refined 6.794 r_long_range_B_other 6.762 r_dihedral_angle_2_deg 5.963 r_scangle_other 4.933 r_scbond_it 3.372 r_scbond_other 3.371 r_mcangle_it 3.053 r_mcangle_other 3.052
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.346 r_dihedral_angle_1_deg 7.558 r_long_range_B_refined 6.794 r_long_range_B_other 6.762 r_dihedral_angle_2_deg 5.963 r_scangle_other 4.933 r_scbond_it 3.372 r_scbond_other 3.371 r_mcangle_it 3.053 r_mcangle_other 3.052 r_mcbond_it 2.157 r_mcbond_other 2.153 r_angle_refined_deg 1.299 r_angle_other_deg 0.454 r_chiral_restr 0.069 r_gen_planes_refined 0.01 r_bond_refined_d 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_dihedral_angle_4_deg 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 3352 Nucleic Acid Atoms Solvent Atoms 178 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing PDB_EXTRACT data extraction