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HLA-DR1 in complex with a synthetic peptide (AAYSDQATPLLLSPR)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AQD PDB Entry 1AQD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 298 PEG 6000, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.21 59.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.554 α = 90 b = 112.646 β = 90 c = 206.976 γ = 90
Symmetry Space Group C 2 2 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 CCD ADSC QUANTUM 315 Cylindrical platinum-coated silicon mirror 2001-04-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1000 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.4 23.9 99.8 0.053 0.065 11 6 46428 44505 34.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.55 99.9 0.312 0.378 3.5 5 4384
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1AQD 2.4 23.9 46428 44322 3143 99.8 0.232 0.2311 0.231 0.2308 0.255 0.2554 Random 45.1
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] -10.81 20.61 -9.8
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26 c_angle_deg 1.3 c_improper_angle_d 0.81 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6259 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection SCALEPACK data scaling AMoRE phasing CNS refinement