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Structure of the retinoblastoma protein pocket domain in complex with adenovirus E1A CR1 domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 293 15mM magnesium acetate tetrahydrate, 50mM sodium cacodylate trihydrate, pH 6.0 and 1.7M ammonium sulfate, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.46 64.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.713 α = 94.34 b = 57.706 β = 92.69 c = 92.268 γ = 105.79
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD MARMOSAIC 300 mm CCD 2006-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.980 APS 23-ID-D
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 1.671 50 92 0.035 14.6 2.5 121240 121240
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 1.671 1.73 56.7 0.392 1.7 7485
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.671 40.82 115475 115475 11573 95.25 0.19759 0.19759 0.19532 0.1942 0.21823 0.2181 RANDOM 28.025
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] -0.16 0.01 0.09 0.32 0.37 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.808 r_dihedral_angle_3_deg 15.904 r_dihedral_angle_4_deg 12.195 r_dihedral_angle_1_deg 4.631 r_scangle_it 3.332 r_scbond_it 2.206 r_mcangle_it 1.405 r_angle_refined_deg 1.256 r_mcbond_it 0.86 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.808 r_dihedral_angle_3_deg 15.904 r_dihedral_angle_4_deg 12.195 r_dihedral_angle_1_deg 4.631 r_scangle_it 3.332 r_scbond_it 2.206 r_mcangle_it 1.405 r_angle_refined_deg 1.256 r_mcbond_it 0.86 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.213 r_nbd_refined 0.212 r_symmetry_hbond_refined 0.212 r_xyhbond_nbd_refined 0.115 r_chiral_restr 0.104 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5775 Nucleic Acid Atoms Solvent Atoms 482 Heterogen Atoms 10
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction