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Human EphA3 kinase and juxtamembrane region, Y596F:Y602F:Y742A triple mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GSF PDB entry 2GSF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 20 mg/mL Protein, 25% PEG 3350, 0.2M Ammonium sulfate, 0.1M Hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.86 33.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.154 α = 90 b = 38.621 β = 102.66 c = 76.345 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 210 2006-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.00000 APS 17-ID
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 1.79 40 92 0.057 11.8 4.1 26894
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 1.79 1.86 57.8 0.448 3.9
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 2GSF 1.79 34.18 26888 1346 91.91 0.1752 0.17434 0.1844 0.19139 0.196 RANDOM 17.312
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.304 r_dihedral_angle_4_deg 17.443 r_dihedral_angle_3_deg 12.848 r_dihedral_angle_1_deg 6.273 r_scangle_it 3.207 r_scbond_it 2.23 r_angle_refined_deg 1.526 r_mcangle_it 1.467 r_mcbond_it 1.299 r_angle_other_deg 0.944
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.304 r_dihedral_angle_4_deg 17.443 r_dihedral_angle_3_deg 12.848 r_dihedral_angle_1_deg 6.273 r_scangle_it 3.207 r_scbond_it 2.23 r_angle_refined_deg 1.526 r_mcangle_it 1.467 r_mcbond_it 1.299 r_angle_other_deg 0.944 r_symmetry_vdw_other 0.255 r_symmetry_vdw_refined 0.232 r_mcbond_other 0.23 r_nbd_refined 0.213 r_nbd_other 0.189 r_xyhbond_nbd_refined 0.181 r_symmetry_hbond_refined 0.176 r_nbtor_refined 0.175 r_chiral_restr 0.09 r_nbtor_other 0.085 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2233 Nucleic Acid Atoms Solvent Atoms 333 Heterogen Atoms 6
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling