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HLA-A*0201 single chain trimer with HPV.16 E7 peptide LLMGTLGIV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MRK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 0.1 M MES, pH 6,5, 25% PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 2.12 41.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.363 α = 90 b = 65.094 β = 96.25 c = 130.321 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 295 CCD RIGAKU SATURN 944+ 2014-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.22 50.01 90.7 12.5 3.1 37686
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 3MRK 2.22 50.01 35786 1887 90.46 0.21582 0.21346 0.2181 0.26005 0.2628 RANDOM 31.033
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] 1.22 0.47 -1.42 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.337 r_dihedral_angle_4_deg 16.803 r_dihedral_angle_3_deg 13.776 r_dihedral_angle_1_deg 6.46 r_long_range_B_refined 3.063 r_long_range_B_other 3.039 r_mcangle_it 1.58 r_mcangle_other 1.58 r_scangle_other 1.332 r_angle_refined_deg 1.131
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.337 r_dihedral_angle_4_deg 16.803 r_dihedral_angle_3_deg 13.776 r_dihedral_angle_1_deg 6.46 r_long_range_B_refined 3.063 r_long_range_B_other 3.039 r_mcangle_it 1.58 r_mcangle_other 1.58 r_scangle_other 1.332 r_angle_refined_deg 1.131 r_mcbond_it 0.898 r_mcbond_other 0.897 r_angle_other_deg 0.826 r_scbond_it 0.755 r_scbond_other 0.755 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 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 6038 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling PHASER phasing