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Structure of the ACK1 Kinase Domain bound to Debromohymenialdisine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U46 PDB CODE 1U46
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 291 PEG 2000, sodium chloride, magnesium chloride, TRIS, TCEP, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.1 40.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.552 α = 90 b = 42.918 β = 112.02 c = 85.149 γ = 90
Symmetry Space Group P 1 21 1
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 2003-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.1 46.6 99.7 0.059 14.6 3.5 32292
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.21 98.3 0.373 2.6 3.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB CODE 1U46 2.1 46.6 32292 30671 1621 99.7 0.205 0.203 0.212 0.248 0.2442 RANDOM 35.67
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] -2.12 -2.1 2.34 -1.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.871 r_scangle_it 3.829 r_scbond_it 2.414 r_mcangle_it 1.852 r_angle_refined_deg 1.81 r_mcbond_it 1.026 r_angle_other_deg 0.927 r_symmetry_vdw_other 0.32 r_symmetry_vdw_refined 0.315 r_nbd_other 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.871 r_scangle_it 3.829 r_scbond_it 2.414 r_mcangle_it 1.852 r_angle_refined_deg 1.81 r_mcbond_it 1.026 r_angle_other_deg 0.927 r_symmetry_vdw_other 0.32 r_symmetry_vdw_refined 0.315 r_nbd_other 0.24 r_nbd_refined 0.217 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.136 r_chiral_restr 0.098 r_nbtor_other 0.085 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_gen_planes_other 0.008 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_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 4168 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOLREP phasing