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JAK2 kinase (JH1 domain) in complex with compound 30
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B7A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 300 ammonium acetate, sodium citrate, PEG 8000, pH 6, VAPOR DIFFUSION, SITTING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.65 53.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.366 α = 75.27 b = 76.308 β = 66.62 c = 87.278 γ = 62.96
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 Si(111) 2010-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 0.98 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.25 50 96.5 0.107 7.1 2 66346 66346 -2 26
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.33 95.9 0.459 1.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2B7A 2.25 50 -2 66346 65651 691 96.25 0.193 0.1925 0.1919 0.1978 0.24959 0.2446 RANDOM 28.52
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 -0.65 -0.59 0.87 1.07 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.295 r_dihedral_angle_4_deg 19.283 r_dihedral_angle_3_deg 15.338 r_dihedral_angle_1_deg 5.547 r_scangle_it 5.017 r_mcangle_it 4.568 r_scbond_it 3.681 r_mcbond_it 3.488 r_angle_refined_deg 1.193 r_angle_other_deg 0.852
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.295 r_dihedral_angle_4_deg 19.283 r_dihedral_angle_3_deg 15.338 r_dihedral_angle_1_deg 5.547 r_scangle_it 5.017 r_mcangle_it 4.568 r_scbond_it 3.681 r_mcbond_it 3.488 r_angle_refined_deg 1.193 r_angle_other_deg 0.852 r_mcbond_other 0.541 r_symmetry_vdw_refined 0.34 r_symmetry_vdw_other 0.288 r_nbd_refined 0.208 r_nbd_other 0.195 r_symmetry_hbond_refined 0.184 r_nbtor_refined 0.179 r_xyhbond_nbd_refined 0.15 r_nbtor_other 0.083 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_bond_other_d 0.006 r_xyhbond_nbd_other 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9876 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms 92
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling