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Crystal structure of Cren7-dsDNA complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JTM PDB ENTRY 2JTM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.8 293 30% PEG1500, pH 6.8, VAPOR DIFFUSION, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.5 50.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.693 α = 90 b = 52.354 β = 90 c = 88.617 γ = 90
Symmetry Space Group C 2 2 21
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 MARMOSAIC 225 mm CCD 2009-11-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97947 SSRF BL17U
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 1.9 30 99.5 0.05 0.05 44 7.7 9660 2 2
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 1.9 1.98 100 0.34 8.7 7.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 2JTM 1.9 30 8918 8918 452 99.47 0.21774 0.21774 0.21634 0.2154 0.2464 0.2444 RANDOM 40.672
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] 2.18 -0.57 -1.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.01 r_dihedral_angle_4_deg 23.284 r_dihedral_angle_3_deg 18.992 r_dihedral_angle_1_deg 5.418 r_scangle_it 1.928 r_scbond_it 1.534 r_angle_refined_deg 1.386 r_mcangle_it 1.174 r_mcbond_it 0.637 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.01 r_dihedral_angle_4_deg 23.284 r_dihedral_angle_3_deg 18.992 r_dihedral_angle_1_deg 5.418 r_scangle_it 1.928 r_scbond_it 1.534 r_angle_refined_deg 1.386 r_mcangle_it 1.174 r_mcbond_it 0.637 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.191 r_symmetry_hbond_refined 0.172 r_nbd_refined 0.171 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.065 r_bond_refined_d 0.008 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 463 Nucleic Acid Atoms 322 Solvent Atoms 78 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling