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Crystal structure of the tyrosine kinase binding domain of Cbl-c (PL mutant)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 288 22% PEG3350, 0.1M Magnesium Nitrate, 0.6M NDSB-201, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.21 44.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.6 α = 90 b = 66.211 β = 106.02 c = 81.558 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 90 CCD Bruker DIP-6040 2008-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.900 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.39 50 100 0.062 0.062 22.777 3.8 25297 -3 40.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 100 0.373 0.373 4.006 3.8 2477
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2.39 37.98 1704 25272 1290 99.31 0.2176 0.2151 0.2146 0.2638 0.2587 RANDOM 36.9439
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] 1.36 0.6 -1.69 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.607 r_dihedral_angle_4_deg 21.535 r_dihedral_angle_3_deg 18.42 r_dihedral_angle_1_deg 5.343 r_scangle_it 4.041 r_scbond_it 2.418 r_mcangle_it 1.642 r_angle_refined_deg 1.468 r_mcbond_it 0.833 r_chiral_restr 0.102
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.607 r_dihedral_angle_4_deg 21.535 r_dihedral_angle_3_deg 18.42 r_dihedral_angle_1_deg 5.343 r_scangle_it 4.041 r_scbond_it 2.418 r_mcangle_it 1.642 r_angle_refined_deg 1.468 r_mcbond_it 0.833 r_chiral_restr 0.102 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4383 Nucleic Acid Atoms Solvent Atoms 120 Heterogen Atoms 2
Software Software Software Name Purpose SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction