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AtVAL1 B3 domain in complex with 13bp-DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30% (w/v) PEG 5000 MME, 0.1M Tris base/Hydrochloric acid, 0.2M Lithium sulfate
Crystal Properties Matthews coefficient Solvent content 3.24 61.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.78 α = 90 b = 87.78 β = 90 c = 148.735 γ = 90
Symmetry Space Group I 41 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 100 PIXEL DECTRIS PILATUS3 S 6M 2017-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97853 SSRF BL18U1
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 2.6 75.6 100 0.096 37.3 16.3 9243
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 2.6 2.69
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 2.61 30 7578 383 86.34 0.21238 0.21025 0.2145 0.25674 0.2544 RANDOM 37.787
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] -1.42 -1.42 2.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.846 r_dihedral_angle_4_deg 25.368 r_dihedral_angle_3_deg 19.189 r_long_range_B_other 8.262 r_long_range_B_refined 8.261 r_dihedral_angle_1_deg 8.202 r_mcangle_it 5.508 r_mcangle_other 5.505 r_scangle_other 5.35 r_scbond_it 3.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.846 r_dihedral_angle_4_deg 25.368 r_dihedral_angle_3_deg 19.189 r_long_range_B_other 8.262 r_long_range_B_refined 8.261 r_dihedral_angle_1_deg 8.202 r_mcangle_it 5.508 r_mcangle_other 5.505 r_scangle_other 5.35 r_scbond_it 3.44 r_scbond_other 3.401 r_mcbond_it 3.226 r_mcbond_other 3.218 r_angle_refined_deg 1.695 r_angle_other_deg 1.313 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 866 Nucleic Acid Atoms 527 Solvent Atoms Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling SHELXDE phasing