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HLA class I histocompatibility antigen
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3UTP 3UTP and 3UTQ experimental model PDB 3UTQ 3UTP and 3UTQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M sodium cacodylate pH6.5, 15% PEG 4000, 0.2M sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.74 55.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.83 α = 96.91 b = 100.07 β = 98.31 c = 122.44 γ = 96.52
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 2012-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.97630 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) 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 2.475 98.457 98.2 0.105 0.127 0.084 4.9 2 70968 70968
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.47 2.54 97.5 0.563 0.563 0.407 1.2 2 5183
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3UTP and 3UTQ 2.475 98.457 67353 3581 98.16 0.2074 0.2047 0.2076 0.2588 0.2588 RANDOM 63.284
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] 2.4 0.45 0.26 -0.45 1.78 -2.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.079 r_dihedral_angle_3_deg 21.756 r_dihedral_angle_4_deg 17.389 r_dihedral_angle_1_deg 8.08 r_mcangle_it 2.907 r_mcbond_it 1.773 r_mcbond_other 1.772 r_angle_refined_deg 1.743 r_angle_other_deg 1.208 r_chiral_restr 0.112
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.079 r_dihedral_angle_3_deg 21.756 r_dihedral_angle_4_deg 17.389 r_dihedral_angle_1_deg 8.08 r_mcangle_it 2.907 r_mcbond_it 1.773 r_mcbond_other 1.772 r_angle_refined_deg 1.743 r_angle_other_deg 1.208 r_chiral_restr 0.112 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13405 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 40
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction