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Human EphA3 kinase and juxtamembrane region, Y596F:Y602F:S768A 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 1.83 32.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.046 α = 90 b = 38.234 β = 102.31 c = 76.099 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 1.2 40 96.5 0.058 12.4 4.2 92132
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 1.24 93.6 0.598 3.9 8822
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 1.2 34 92120 4625 96.45 0.192 0.19 0.1978 0.212 0.2172 RANDOM 13.617
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.462 r_dihedral_angle_4_deg 13.007 r_dihedral_angle_3_deg 11.264 r_dihedral_angle_1_deg 4.825 r_scangle_it 1.811 r_scbond_it 1.353 r_angle_refined_deg 1.09 r_mcangle_it 0.932 r_angle_other_deg 0.808 r_mcbond_it 0.788
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.462 r_dihedral_angle_4_deg 13.007 r_dihedral_angle_3_deg 11.264 r_dihedral_angle_1_deg 4.825 r_scangle_it 1.811 r_scbond_it 1.353 r_angle_refined_deg 1.09 r_mcangle_it 0.932 r_angle_other_deg 0.808 r_mcbond_it 0.788 r_nbd_refined 0.215 r_nbd_other 0.176 r_nbtor_refined 0.173 r_symmetry_vdw_refined 0.164 r_symmetry_vdw_other 0.162 r_mcbond_other 0.122 r_xyhbond_nbd_refined 0.119 r_nbtor_other 0.081 r_symmetry_hbond_refined 0.08 r_chiral_restr 0.065 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2410 Nucleic Acid Atoms Solvent Atoms 429 Heterogen Atoms 4
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