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Crystal structure of human class i mhc (hla-a2.1) complexed with beta 2-microglobulin and hiv-rt variant peptide i1y
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HHH PDB ENTRY 1HHH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 PROTEIN WAS CRYSTALLIZED IN THE HANGING DROP VAPOR DIFFUSION METHOD. THE
RESERVOIR SOLUTION CONTAINED 16% PEG8000 IN 25MM MES BUFFER, PH6.5. THE
HANGING DROP WAS A 1:1 MIXTURE OF THE RESERVOIR SOLUTION AND THE PROTEIN
SOLUTION WHICH CONTAINED 10MG/ML PROTEIN IN 25MM MES BUFFER, PH6.5.
Crystal Properties Matthews coefficient Solvent content 2.5 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.574 α = 82.09 b = 62.97 β = 76.47 c = 74.559 γ = 77.78
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 RIGAKU RAXIS IIC MIRRORS 1997-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 2.8 30 99.2 0.11 13.2 7 21030 45.5
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) 2.8 2.9 98.6 0.32 4.2 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 1HHH 2.8 15 18619 2102 99 0.274 0.26 0.296 0.315 0.3038 RANDOM 43.2
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 p_transverse_tor 26.2 p_staggered_tor 20.1 p_planar_tor 7.4 p_scangle_it 1.526 p_scbond_it 1.046 p_mcangle_it 1.006 p_mcbond_it 0.811 p_multtor_nbd 0.271 p_xyhbond_nbd 0.228 p_singtor_nbd 0.189
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 26.2 p_staggered_tor 20.1 p_planar_tor 7.4 p_scangle_it 1.526 p_scbond_it 1.046 p_mcangle_it 1.006 p_mcbond_it 0.811 p_multtor_nbd 0.271 p_xyhbond_nbd 0.228 p_singtor_nbd 0.189 p_chiral_restr 0.105 p_planar_d 0.073 p_angle_d 0.045 p_plane_restr 0.0203 p_bond_d 0.01 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6311 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement CCP4 phasing