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Cdk2/Cyclin A complexed with a thiophene carboxamide inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FIN pdb entry 1FIN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 277 1.5 M sodium acetate, 100 mM sodium cacodylate, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.11 70.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 184.882 α = 90 b = 184.882 β = 90 c = 213 γ = 120
Symmetry Space Group P 62 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 CCD ADSC QUANTUM 4 2003-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.00 APS 17-ID
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 2.8 160 95.44 0.11 40 8.4 59552 48311 2 73.5
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 2.8 2.87 73 0.47 3.78 8 2695
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1FIN 2.8 160.13 2 48311 48311 2579 95.44 0.1947 0.1947 0.19323 0.22176 0.2313 RANDOM 63.453
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] 1.94 0.97 1.94 -2.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.289 r_dihedral_angle_4_deg 19.75 r_dihedral_angle_3_deg 14.279 r_dihedral_angle_1_deg 5.086 r_scangle_it 1.389 r_angle_refined_deg 1.12 r_scbond_it 0.828 r_mcangle_it 0.591 r_mcbond_it 0.336 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.289 r_dihedral_angle_4_deg 19.75 r_dihedral_angle_3_deg 14.279 r_dihedral_angle_1_deg 5.086 r_scangle_it 1.389 r_angle_refined_deg 1.12 r_scbond_it 0.828 r_mcangle_it 0.591 r_mcbond_it 0.336 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.217 r_nbd_refined 0.188 r_symmetry_hbond_refined 0.144 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.077 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8772 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing