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A soakable crystal form of human CDK7 in complex with AMP-PNP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 19% 2-propanol, 5% glycerol, 19%PEG4K, 0.095M Na3citrate pH5.6/HCl
Crystal Properties Matthews coefficient Solvent content 2.9 57.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.14 α = 90 b = 180.285 β = 117.85 c = 76.335 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 EIGER X 16M 2019-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.99987 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.21 90.14 86.1 0.091 10.5 3.5 64931
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.26 2.391 47 1.048 1.7
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 2.21 90.14 64931 3529 75.57 0.19491 0.19236 0.1988 0.24265 0.248 RANDOM 52.316
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] 0.2 -0.52 0.09 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.055 r_dihedral_angle_4_deg 22.759 r_dihedral_angle_1_deg 18.039 r_dihedral_angle_3_deg 17.815 r_long_range_B_refined 7.842 r_long_range_B_other 7.842 r_scbond_it 4.81 r_scbond_other 4.81 r_mcbond_it 3.662 r_mcbond_other 3.662
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.055 r_dihedral_angle_4_deg 22.759 r_dihedral_angle_1_deg 18.039 r_dihedral_angle_3_deg 17.815 r_long_range_B_refined 7.842 r_long_range_B_other 7.842 r_scbond_it 4.81 r_scbond_other 4.81 r_mcbond_it 3.662 r_mcbond_other 3.662 r_angle_refined_deg 1.547 r_angle_other_deg 0.511 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_bond_other_d 0.001 r_gen_planes_refined 0.001 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_mcangle_it r_mcangle_other r_scangle_it r_scangle_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9208 Nucleic Acid Atoms Solvent Atoms 360 Heterogen Atoms 145
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling REFMAC phasing