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Crystal structure of death associated protein kinase complexed with ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JKS PDB Entry 1JKS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 .2 M ammonium iodide
2.2 M ammonium sulfate , VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.92 35.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.862 α = 90 b = 62.675 β = 90 c = 88.23 γ = 90
Symmetry Space Group P 21 21 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 MARMOSAIC 300 mm CCD Be lenses 2008-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
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 1.7 30 0.066 12.7 3.8 29383 29383 -3 30.5
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) 1.7 1.76 0.501 4.08 3.7 2895
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB Entry 1JKS 1.7 30 27835 27835 1489 99.89 0.17955 0.17753 0.21706 0.2323 RANDOM 24.628
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] -0.22 0.54 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.525 r_dihedral_angle_4_deg 17.203 r_dihedral_angle_3_deg 14.455 r_dihedral_angle_1_deg 6.098 r_scangle_it 3.898 r_scbond_it 2.387 r_mcangle_it 1.562 r_angle_refined_deg 1.47 r_mcbond_it 0.94 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.525 r_dihedral_angle_4_deg 17.203 r_dihedral_angle_3_deg 14.455 r_dihedral_angle_1_deg 6.098 r_scangle_it 3.898 r_scbond_it 2.387 r_mcangle_it 1.562 r_angle_refined_deg 1.47 r_mcbond_it 0.94 r_nbtor_refined 0.311 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.207 r_symmetry_hbond_refined 0.173 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.102 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2353 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 46
Software Software Software Name Purpose BLU-MAX data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling