☰ Navigation Tabs
Human Leukocyte Antigen Class I A02 Carrying LLWNPGMAV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5EU5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.2M ammonium sulphate, 0.1M HEPES pH7, 20% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.73 55.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.09 α = 90 b = 168.99 β = 90 c = 49.15 γ = 90
Symmetry Space Group P 21 21 2
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 2016-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97626 Diamond I03
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 1.71 96.8 100 0.094 0.094 0.055 0.998 11.9 7.3 107271 22.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.71 1.75 100 1.335 0.506 1.5 7849
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5EU5 1.71 96.8 101949 5240 99.95 0.18423 0.18266 0.21448 0.2179 RANDOM 29.761
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 1.31 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 17.493 r_dihedral_angle_3_deg 15.117 r_long_range_B_refined 6.669 r_long_range_B_other 6.504 r_dihedral_angle_1_deg 6.213 r_scangle_other 2.976 r_scbond_it 2.009 r_scbond_other 1.925 r_angle_refined_deg 1.897
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 17.493 r_dihedral_angle_3_deg 15.117 r_long_range_B_refined 6.669 r_long_range_B_other 6.504 r_dihedral_angle_1_deg 6.213 r_scangle_other 2.976 r_scbond_it 2.009 r_scbond_other 1.925 r_angle_refined_deg 1.897 r_mcangle_it 1.716 r_mcangle_other 1.716 r_mcbond_it 1.106 r_mcbond_other 1.106 r_angle_other_deg 1.047 r_chiral_restr 0.119 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 6322 Nucleic Acid Atoms Solvent Atoms 749 Heterogen Atoms 131
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing