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The crystal structure of Ly49C bound to H-2Kb
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P4L PDB ENTRY 1P4L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 277 2.0 M ammonium sulfate, 2% (volume/volume) PEG 400 and 0.1 M Hepes, pH 7.5, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.16 61.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 152.01 α = 90 b = 152.01 β = 90 c = 64.66 γ = 90
Symmetry Space Group P 43 21 2
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 4 2003-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 1.0 CHESS F1
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 2.9 50 97.5 0.062 16931
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) 2.9 2.95 97.9 0.325
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 1P4L 2.9 30 15907 720 95.6 0.20129 0.19882 0.2583 0.26284 0.2967 RANDOM 74.38
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] 1.39 1.39 -2.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.037 r_dihedral_angle_3_deg 20.743 r_dihedral_angle_4_deg 19.111 r_dihedral_angle_1_deg 9.583 r_scangle_it 1.843 r_angle_refined_deg 1.543 r_scbond_it 1.135 r_mcangle_it 0.972 r_mcbond_it 0.548 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.037 r_dihedral_angle_3_deg 20.743 r_dihedral_angle_4_deg 19.111 r_dihedral_angle_1_deg 9.583 r_scangle_it 1.843 r_angle_refined_deg 1.543 r_scbond_it 1.135 r_mcangle_it 0.972 r_mcbond_it 0.548 r_nbtor_refined 0.313 r_nbd_refined 0.234 r_symmetry_vdw_refined 0.207 r_xyhbond_nbd_refined 0.169 r_symmetry_hbond_refined 0.158 r_chiral_restr 0.1 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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 4164 Nucleic Acid Atoms Solvent Atoms 65 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing