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Crystal structure of human ALK with a covalent modification
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XP2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 2 uL of 17 mg/mL protein (50 mM Bicine pH 8.4, 150 mM NaCl, 5 mM DTT) with 2 uL of 0.1 M TRIS hydrochloride, 0.2 M Sodium acetate trihydrate, 30% w/v Polyethylene glycol 4,000
Crystal Properties Matthews coefficient Solvent content 2.09 41.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.535 α = 90 b = 57.157 β = 90 c = 104.216 γ = 90
Symmetry Space Group P 21 21 21
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 2011-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.9774 ALS 5.0.1
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 2.1 46.2 98.8 0.135 10.1 5.6 18384
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 2.21 97.5 0.621 2.8 2.8
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 2XP2 2.1 46.2 17402 938 98.8 0.19458 0.19201 0.1905 0.24403 0.241 RANDOM 21.256
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] -0.86 -0.6 1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.303 r_dihedral_angle_4_deg 22.184 r_dihedral_angle_3_deg 14.074 r_dihedral_angle_1_deg 5.214 r_scangle_it 2.782 r_scbond_it 1.708 r_mcangle_it 1.48 r_angle_refined_deg 1.197 r_mcbond_it 0.815 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.303 r_dihedral_angle_4_deg 22.184 r_dihedral_angle_3_deg 14.074 r_dihedral_angle_1_deg 5.214 r_scangle_it 2.782 r_scbond_it 1.708 r_mcangle_it 1.48 r_angle_refined_deg 1.197 r_mcbond_it 0.815 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_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 2243 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement