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Crystal Structure Of HLA-B*2705 Complexed With the self-Peptide TIS from EGF-response factor 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JGE PDB ENTRY 1JGE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 18% PEG8000, 0.1M TRIS PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.7 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.861 α = 90 b = 82.488 β = 90 c = 109.421 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 IMAGE PLATE MARRESEARCH MIRRORS 2002-09-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.27 29.6 95 0.09 13 3.2 20780
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.27 2.35 88.4 0.23 2.1 2.3
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 PDB ENTRY 1JGE 2.27 65.94 19717 1063 94.6 0.187 0.184 0.1891 0.246 0.2442 RANDOM 25.57
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] -0.6 -0.18 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.686 r_scangle_it 3.024 r_scbond_it 1.839 r_angle_refined_deg 1.38 r_mcangle_it 1.117 r_angle_other_deg 0.822 r_mcbond_it 0.599 r_symmetry_vdw_other 0.313 r_nbd_other 0.251 r_nbd_refined 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.686 r_scangle_it 3.024 r_scbond_it 1.839 r_angle_refined_deg 1.38 r_mcangle_it 1.117 r_angle_other_deg 0.822 r_mcbond_it 0.599 r_symmetry_vdw_other 0.313 r_nbd_other 0.251 r_nbd_refined 0.19 r_symmetry_vdw_refined 0.188 r_xyhbond_nbd_refined 0.159 r_symmetry_hbond_refined 0.152 r_chiral_restr 0.083 r_nbtor_other 0.083 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3171 Nucleic Acid Atoms Solvent Atoms 420 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement HKL data reduction SCALEPACK data scaling MOLREP phasing