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The Crystal Structure of JNK1 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XRW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M Nacacodylate pH6.0, 15% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.46 49.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.17 α = 90 b = 128.405 β = 90 c = 82.905 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS EIGER X 9M 2022-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95371 CLSI 08ID-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 19.786 99.9 0.094 17.2 13.5 28200
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 2.05 0.814
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2 19.786 28180 1421 99.841 0.195 0.1926 0.1983 0.2345 0.2396 38.81
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] -0.979 1.146 -0.167
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.941 r_dihedral_angle_4_deg 19.549 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 6.353 r_lrange_it 5.27 r_lrange_other 5.136 r_scangle_it 3.195 r_scangle_other 3.194 r_mcangle_it 2.927 r_mcangle_other 2.926
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.941 r_dihedral_angle_4_deg 19.549 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 6.353 r_lrange_it 5.27 r_lrange_other 5.136 r_scangle_it 3.195 r_scangle_other 3.194 r_mcangle_it 2.927 r_mcangle_other 2.926 r_scbond_it 1.954 r_scbond_other 1.953 r_mcbond_it 1.765 r_mcbond_other 1.765 r_angle_refined_deg 1.162 r_angle_other_deg 1.117 r_symmetry_nbd_refined 0.195 r_nbd_refined 0.192 r_nbd_other 0.17 r_symmetry_nbd_other 0.158 r_nbtor_refined 0.157 r_xyhbond_nbd_refined 0.124 r_symmetry_xyhbond_nbd_refined 0.107 r_symmetry_nbtor_other 0.071 r_chiral_restr 0.067 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2763 Nucleic Acid Atoms Solvent Atoms 252 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing