☰ Navigation Tabs
Crystal structure of the SLA-2*1001 allele and ASFV antigenic peptide at 2.2A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8GQV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.2 M Lithium sulfate monohydrate,0.1 M TRIS hydrochloride pH 8.5,30% w/v Polyethylene glycol 4,000
Crystal Properties Matthews coefficient Solvent content 2.76 55.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.944 α = 90 b = 105.317 β = 90 c = 221.35 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 PILATUS3 S 6M 2023-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.987 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 1.94 50 98.4 0.0267 6 9.5 39759
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.94 1.97 0.562 0.25
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.2 49.03 35066 1859 72.34 0.22319 0.22182 0.24882 0.2212 RANDOM 32.232
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] -1.03 1.58 -0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.532 r_dihedral_angle_4_deg 21.9 r_dihedral_angle_3_deg 20.916 r_dihedral_angle_1_deg 7.549 r_long_range_B_refined 7.018 r_long_range_B_other 7.018 r_scangle_other 4.855 r_mcangle_it 4.443 r_mcangle_other 4.442 r_scbond_it 2.903
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.532 r_dihedral_angle_4_deg 21.9 r_dihedral_angle_3_deg 20.916 r_dihedral_angle_1_deg 7.549 r_long_range_B_refined 7.018 r_long_range_B_other 7.018 r_scangle_other 4.855 r_mcangle_it 4.443 r_mcangle_other 4.442 r_scbond_it 2.903 r_scbond_other 2.902 r_mcbond_it 2.761 r_mcbond_other 2.761 r_angle_refined_deg 1.636 r_angle_other_deg 1.246 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 6224 Nucleic Acid Atoms Solvent Atoms 109 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing