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X-ray co-crystal structure of compound 27 in with complex JAK2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IOK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG 3350, ammonium acetate, HEPES
Crystal Properties Matthews coefficient Solvent content 2.07 40.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.65 α = 90 b = 172.56 β = 110.6 c = 52.48 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 PIXEL DECTRIS EIGER2 XE 16M 2020-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.97 43.14 100 0.122 0.049 12.2 7 42978
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.97 2.02 1.167 0.465 1.7
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 3IOK 1.97 42.73 40778 2158 99.95 0.19655 0.19457 0.2013 0.23569 0.2443 RANDOM 37.676
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] -0.57 1.43 -0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.051 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 17.604 r_long_range_B_refined 6.9 r_long_range_B_other 6.86 r_dihedral_angle_1_deg 6.769 r_scangle_other 4.328 r_mcangle_it 3.207 r_mcangle_other 3.207 r_scbond_it 2.715
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.051 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 17.604 r_long_range_B_refined 6.9 r_long_range_B_other 6.86 r_dihedral_angle_1_deg 6.769 r_scangle_other 4.328 r_mcangle_it 3.207 r_mcangle_other 3.207 r_scbond_it 2.715 r_scbond_other 2.715 r_mcbond_it 2.088 r_mcbond_other 2.083 r_angle_refined_deg 1.876 r_angle_other_deg 1.435 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4636 Nucleic Acid Atoms Solvent Atoms 210 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement xia2 data reduction XDS data scaling PHASER phasing