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Comparison of the structure and DNA binding properties of the E2 proteins from an oncogenic and a non-oncogenic human papillomavirus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 Ammonium sulfate, sodium chloride, sodium hepes, beta-mercaptoethanol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.35 47.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.664 α = 90 b = 71.664 β = 90 c = 195.004 γ = 120
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 ADSC QUANTUM 4 2001-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 1.488 SRS PX14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 30 94 45471 42743 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 58.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 MIR THROUGHOUT 1.9 20 2 42187 39394 2086 93.38 0.19472 0.1947 0.19141 0.2005 0.25779 0.2556 RANDOM 31.692
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] -2.08 -1.04 -2.08 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.104 r_scangle_it 4.119 r_scbond_it 2.632 r_mcangle_it 2.016 r_angle_other_deg 1.781 r_angle_refined_deg 1.681 r_mcbond_it 1.135 r_symmetry_vdw_other 0.304 r_nbd_other 0.255 r_nbd_refined 0.223
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.104 r_scangle_it 4.119 r_scbond_it 2.632 r_mcangle_it 2.016 r_angle_other_deg 1.781 r_angle_refined_deg 1.681 r_mcbond_it 1.135 r_symmetry_vdw_other 0.304 r_nbd_other 0.255 r_nbd_refined 0.223 r_symmetry_vdw_refined 0.208 r_xyhbond_nbd_refined 0.207 r_symmetry_hbond_refined 0.136 r_chiral_restr 0.1 r_nbtor_other 0.097 r_bond_refined_d 0.018 r_gen_planes_other 0.014 r_gen_planes_refined 0.012 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4672 Nucleic Acid Atoms Solvent Atoms 383 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing