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Crystal structure of the third KH domain of human Poly(C)-Binding Protein-2 in complex with C-rich strand of human telomeric DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.18 295 2M ammonium sulfate, 80 mM lithium sulfate, 100 mM CAPS, pH 8.18, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.78 55.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.069 α = 90 b = 81.069 β = 90 c = 87.815 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 210 KOHZU: Double Crystal Si(111) 2006-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11588, 0.97945 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.6 54.8 98.5 0.033 0.036 22.8 6.8 15752 15516 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.642 84.66 0.406 0.382 7.3 3.6
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 SAD THROUGHOUT 1.6 54.8 13842 723 98.04 0.2066 0.20482 0.2191 0.24225 0.2545 RANDOM 28.797
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] 0.49 0.24 0.49 -0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.648 r_dihedral_angle_4_deg 23.314 r_dihedral_angle_3_deg 10.647 r_dihedral_angle_1_deg 4.443 r_scangle_it 3.661 r_scbond_it 2.71 r_mcangle_it 2.225 r_mcbond_it 1.559 r_angle_refined_deg 1.349 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.648 r_dihedral_angle_4_deg 23.314 r_dihedral_angle_3_deg 10.647 r_dihedral_angle_1_deg 4.443 r_scangle_it 3.661 r_scbond_it 2.71 r_mcangle_it 2.225 r_mcbond_it 1.559 r_angle_refined_deg 1.349 r_nbtor_refined 0.301 r_nbd_refined 0.205 r_symmetry_hbond_refined 0.178 r_symmetry_vdw_refined 0.125 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.09 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 569 Nucleic Acid Atoms 137 Solvent Atoms 81 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS phasing CNS refinement DENZO data reduction PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling