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Tyrosine kinase AS - a common ancestor of Src and Abl
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HYY PDB ENTRY 2HYY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 291 6.3 MG/ML OF LYSINE MODIFIED (ETHYLATED) PROTEIN IN 50 MM TRIS PH 8.0, 500 MM NACL, 5% GLYCEROL, 20 MM MGCL2, 2 MM IMIDAZOLE, 1 MM AMPPCP, MIXED 1:1 WITH 2.2 M AMMONIUM SULFATE, HANGING DROP, 18C
Crystal Properties Matthews coefficient Solvent content 3.9 69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.487 α = 90 b = 128.487 β = 90 c = 52.806 γ = 120
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 315r 2013-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
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 2.95 64.24 93.4 0.1 15.5 10.5 104864 3.1
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 2.95 3.18 98.2 0.69 3.1 10.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2HYY 2.95 64.33 8980 993 93.15 0.1918 0.18495 0.2533 0.2978 RANDOM 91.429
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] 3.5 3.5 3.5 -11.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.153 r_dihedral_angle_4_deg 19.485 r_dihedral_angle_3_deg 18.152 r_mcangle_it 9.647 r_dihedral_angle_1_deg 8.204 r_scbond_it 7.257 r_mcbond_it 6.386 r_mcbond_other 6.358 r_angle_refined_deg 1.616 r_angle_other_deg 0.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.153 r_dihedral_angle_4_deg 19.485 r_dihedral_angle_3_deg 18.152 r_mcangle_it 9.647 r_dihedral_angle_1_deg 8.204 r_scbond_it 7.257 r_mcbond_it 6.386 r_mcbond_other 6.358 r_angle_refined_deg 1.616 r_angle_other_deg 0.866 r_chiral_restr 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it 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 2064 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing