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Mechanism of CDK inhibition by active site phosphorylation: CDK2 Y15p T160p in complex with cyclin A structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JST PDB ENTRY 1JST
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 100 MM HEPES PH 7.0, 5 MM DTT, 0.7 M KCL AND 1.20 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 3.1 59.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.801 α = 90 b = 133.202 β = 90 c = 147.585 γ = 90
Symmetry Space Group P 21 21 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 CCD MARRESEARCH 2002-12-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R ELETTRA 5.2R
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 2.3 42.6 94.5 0.07 4.2 2.3 64652 2
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 2.3 2.42 94.5 0.37 1.9 2
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 1JST 2.3 100 58002 3092 93.4 0.204 0.201 0.1996 0.265 0.2044 RANDOM 33.9
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] -0.85 0.74 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.115 r_dihedral_angle_4_deg 19.543 r_dihedral_angle_3_deg 17.723 r_dihedral_angle_1_deg 6.931 r_scangle_it 4.177 r_scbond_it 2.996 r_angle_refined_deg 1.82 r_mcangle_it 1.75 r_mcbond_it 1.243 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.115 r_dihedral_angle_4_deg 19.543 r_dihedral_angle_3_deg 17.723 r_dihedral_angle_1_deg 6.931 r_scangle_it 4.177 r_scbond_it 2.996 r_angle_refined_deg 1.82 r_mcangle_it 1.75 r_mcbond_it 1.243 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.265 r_symmetry_vdw_refined 0.257 r_nbd_refined 0.255 r_xyhbond_nbd_refined 0.201 r_chiral_restr 0.139 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8856 Nucleic Acid Atoms Solvent Atoms 609 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing