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Crystal structure of H-2Db in complex with chimeric gp100
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 277 1.8M ammonium sulfate, 0.1M Tris Cl, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.88 68.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.5 α = 90 b = 105.4 β = 90.08 c = 126.69 γ = 90
Symmetry Space Group P 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 CCD ADSC QUANTUM 210 2007-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
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 2.3 48.6 95.7 122100 116802 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.4 89.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2.3 48.6 122100 115851 6122 99.91 0.23269 0.23108 0.2295 0.26402 0.2622 RANDOM 47.039
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.921 r_dihedral_angle_4_deg 21.175 r_dihedral_angle_3_deg 17.979 r_dihedral_angle_1_deg 6.36 r_scangle_it 2.471 r_scbond_it 1.505 r_mcangle_it 1.434 r_angle_refined_deg 1.325 r_mcbond_it 0.83 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.921 r_dihedral_angle_4_deg 21.175 r_dihedral_angle_3_deg 17.979 r_dihedral_angle_1_deg 6.36 r_scangle_it 2.471 r_scbond_it 1.505 r_mcangle_it 1.434 r_angle_refined_deg 1.325 r_mcbond_it 0.83 r_nbtor_refined 0.298 r_symmetry_vdw_refined 0.241 r_nbd_refined 0.204 r_symmetry_hbond_refined 0.202 r_xyhbond_nbd_refined 0.159 r_chiral_restr 0.09 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12561 Nucleic Acid Atoms Solvent Atoms 482 Heterogen Atoms 181
Software Software Software Name Purpose REFMAC refinement ADSC data collection XDS data reduction XSCALE data scaling PHASER phasing