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Crystal Structure of the Inactive Alpha-kinase Domain of Myosin-II Heavy Chain Kinase A (D756A) Complexed with ATP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LKM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.75 277.15 PEG 3350, lithium sulphate, Tris chloride
Crystal Properties Matthews coefficient Solvent content 2.73 55.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.207 α = 90 b = 109.744 β = 90 c = 77.845 γ = 90
Symmetry Space Group P 21 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 IMAGE PLATE MAR scanner 300 mm plate 2011-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97938 APS 23-ID-D
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 2.4 50 99.9 0.14 17.826 7.6 28026 32.8
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 2.4 2.44 99.5 0.549 2.704 4.3 1185
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 3LKM 2.4 50 26549 1411 96.98 0.1808 0.1785 0.1836 0.2233 0.2243 RANDOM 36.069
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] -2.72 1.34 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.896 r_dihedral_angle_4_deg 20.765 r_dihedral_angle_3_deg 15.106 r_dihedral_angle_1_deg 6.457 r_mcangle_it 4.229 r_mcbond_it 2.491 r_mcbond_other 2.49 r_angle_refined_deg 1.541 r_angle_other_deg 0.977 r_chiral_restr 0.079
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.896 r_dihedral_angle_4_deg 20.765 r_dihedral_angle_3_deg 15.106 r_dihedral_angle_1_deg 6.457 r_mcangle_it 4.229 r_mcbond_it 2.491 r_mcbond_other 2.49 r_angle_refined_deg 1.541 r_angle_other_deg 0.977 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4032 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement Coot model building HKL-2000 data reduction HKL-2000 data scaling PHASER phasing PDB_EXTRACT data extraction