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Crystal Structure of the Catalytic and CaM-Binding domains of Inositol 1,4,5-Trisphosphate 3-Kinase B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 PEG 3350, Magnesium Chloride, HEPES, ATP, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.1 42.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.204 α = 59.9 b = 60.655 β = 72.74 c = 56.851 γ = 88.18
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 2004-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 50 95.3 20323 19368 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 83.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 2.5 50 2 19368 18227 979 95.44 0.18923 0.18876 0.18447 0.1895 0.268 0.1833 RANDOM 35.853
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] 0.1 -1.16 1.53 -0.28 1.8 -2.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.414 r_dihedral_angle_3_deg 21.084 r_dihedral_angle_4_deg 19.966 r_dihedral_angle_1_deg 9.066 r_scangle_it 2.936 r_scbond_it 1.799 r_angle_refined_deg 1.677 r_mcangle_it 1.237 r_mcbond_it 0.72 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.414 r_dihedral_angle_3_deg 21.084 r_dihedral_angle_4_deg 19.966 r_dihedral_angle_1_deg 9.066 r_scangle_it 2.936 r_scbond_it 1.799 r_angle_refined_deg 1.677 r_mcangle_it 1.237 r_mcbond_it 0.72 r_nbtor_refined 0.312 r_symmetry_hbond_refined 0.254 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.202 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.128 r_metal_ion_refined 0.099 r_bond_refined_d 0.014 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_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 4672 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing