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The crystal structure of AsfvPolX:DNA2 binary complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5HR9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 0.1M Succinic acid PH 7.0, 15% PGE 3350
Crystal Properties Matthews coefficient Solvent content 2.51 50.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.196 α = 90 b = 87.485 β = 91.45 c = 87.914 γ = 90
Symmetry Space Group P 1 21 1
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 315r 2015-01-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U
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 1.8 30 93.5 20.5 3.2 75045
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5HR9 1.8 29.31 75045 3936 93.54 0.1989 0.19646 0.24456 0.2267 RANDOM 32.826
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] -1.57 -3.69 -2.58 4.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.672 r_sphericity_free 30.765 r_dihedral_angle_3_deg 14.311 r_dihedral_angle_4_deg 13.564 r_sphericity_bonded 12.385 r_rigid_bond_restr 5.42 r_dihedral_angle_1_deg 5.179 r_angle_other_deg 1.424 r_angle_refined_deg 1.315 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.672 r_sphericity_free 30.765 r_dihedral_angle_3_deg 14.311 r_dihedral_angle_4_deg 13.564 r_sphericity_bonded 12.385 r_rigid_bond_restr 5.42 r_dihedral_angle_1_deg 5.179 r_angle_other_deg 1.424 r_angle_refined_deg 1.315 r_chiral_restr 0.089 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.005 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5704 Nucleic Acid Atoms 656 Solvent Atoms 297 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing