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Crystal structure of human serine threonine kinase-10 bound to SU11274
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2J51 PDB ENTRY 2J51
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 45% PEG300, 0.24M CALCIUM ACETATE, 0.1M SODIUM CACODYLATE PH6.5, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.71 54.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.192 α = 90 b = 112.96 β = 90 c = 133.817 γ = 90
Symmetry Space Group I 2 2 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 MARRESEARCH 2006-09-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 56.52 99.9 0.09 11.4 5.3 25648 28.7
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 2.11 99.8 0.82 2.3 5.3
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 2J51 2 55 24339 1308 99.8 0.205 0.204 0.2054 0.235 0.2304 RANDOM 32.29
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] -0.63 2.17 -1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.822 r_dihedral_angle_4_deg 25.418 r_dihedral_angle_3_deg 13.425 r_dihedral_angle_1_deg 5.74 r_scangle_it 2.232 r_scbond_it 1.413 r_angle_other_deg 1.329 r_angle_refined_deg 1.236 r_mcangle_it 0.878 r_mcbond_it 0.567
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.822 r_dihedral_angle_4_deg 25.418 r_dihedral_angle_3_deg 13.425 r_dihedral_angle_1_deg 5.74 r_scangle_it 2.232 r_scbond_it 1.413 r_angle_other_deg 1.329 r_angle_refined_deg 1.236 r_mcangle_it 0.878 r_mcbond_it 0.567 r_symmetry_vdw_refined 0.508 r_symmetry_vdw_other 0.246 r_nbd_refined 0.197 r_nbd_other 0.178 r_nbtor_refined 0.169 r_symmetry_hbond_refined 0.139 r_xyhbond_nbd_refined 0.131 r_nbtor_other 0.084 r_chiral_restr 0.07 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2148 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing