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Crystal structure of the Jak2 pseudokinase domain (apo form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M14 PDB ENTRY 1M14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 100 mM Tris/HCl, PEG 4000, pH 8.0, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.17 43.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.362 α = 90 b = 57.143 β = 110.42 c = 60.996 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 IMAGE PLATE RIGAKU RAXIS IV++ Osmic Blue 2011-05-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54
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 2.01 50 99.8 0.039 23.5 3.7 19131
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 2.01 2.08 98.6 0.121 3.5 1857
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 1M14 2.01 33.6 19090 981 99.56 0.1813 0.1796 0.1833 0.2123 0.2159 RANDOM 25.6472
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] 1.46 0.02 -0.48 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.583 r_dihedral_angle_4_deg 19.222 r_dihedral_angle_3_deg 13.19 r_dihedral_angle_1_deg 5.856 r_angle_refined_deg 1.198 r_angle_other_deg 0.799 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_bond_other_d 0.006 r_gen_planes_refined 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.583 r_dihedral_angle_4_deg 19.222 r_dihedral_angle_3_deg 13.19 r_dihedral_angle_1_deg 5.856 r_angle_refined_deg 1.198 r_angle_other_deg 0.799 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_bond_other_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2140 Nucleic Acid Atoms Solvent Atoms 154 Heterogen Atoms 12
Software Software Software Name Purpose d*TREK data scaling SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data reduction HKL-2000 data scaling