2JCC

AH3 recognition of mutant HLA-A2 W167A


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.5pH 6.5
Crystal Properties
Matthews coefficientSolvent content
2.6440.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 94.28α = 90
b = 84.346β = 92.53
c = 122.47γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2004-06-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-BMAPS22-BM

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.53092.70.0792.5152000
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.52.67850.3822

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1LP92.5122.1758670309992.50.2440.2420.292RANDOM49.64
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]
1.531.17-0.17-1.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.454
r_dihedral_angle_3_deg14.816
r_dihedral_angle_4_deg14.124
r_dihedral_angle_1_deg6.082
r_scangle_it2.311
r_scbond_it1.642
r_angle_refined_deg1.585
r_mcangle_it0.999
r_mcbond_it0.855
r_nbtor_refined0.302
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.454
r_dihedral_angle_3_deg14.816
r_dihedral_angle_4_deg14.124
r_dihedral_angle_1_deg6.082
r_scangle_it2.311
r_scbond_it1.642
r_angle_refined_deg1.585
r_mcangle_it0.999
r_mcbond_it0.855
r_nbtor_refined0.302
r_symmetry_vdw_refined0.27
r_nbd_refined0.205
r_symmetry_hbond_refined0.17
r_xyhbond_nbd_refined0.144
r_chiral_restr0.085
r_bond_refined_d0.019
r_gen_planes_refined0.008
r_gen_planes_other
r_metal_ion_other
r_bond_other_d
r_symmetry_vdw_other
r_nbtor_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_nbd_other
r_mcbond_other
r_metal_ion_refined
r_mcangle_other
r_xyhbond_nbd_other
r_scbond_other
r_angle_other_deg
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 AtomsNumber
Protein Atoms13126
Nucleic Acid Atoms
Solvent Atoms54
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing