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Crystal structure of the zinc finger domain of Klf4 bound to its target DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.32 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41 α = 90 b = 45.97 β = 90 c = 73.91 γ = 90
Symmetry Space Group P 21 21 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 MARRESEARCH MIRRORS 2008-08-18 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.91841, 2.0, 1.28204, 1.28312, 1.16967 BESSY 14.2
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 1.7 29 97.5 0.08 12.2 4.4 15421 2.7
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 1.7 1.75 98.6 0.68 2.7 4.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT NONE 1.7 25 14649 770 97.5 0.202 0.2 0.2165 0.232 0.2512 RANDOM 17.21
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] -0.84 0.18 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.536 r_dihedral_angle_4_deg 19.51 r_dihedral_angle_3_deg 13.116 r_dihedral_angle_1_deg 4.681 r_scangle_it 4.578 r_mcangle_it 3.58 r_scbond_it 3.516 r_mcbond_it 2.758 r_angle_refined_deg 1.644 r_angle_other_deg 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.536 r_dihedral_angle_4_deg 19.51 r_dihedral_angle_3_deg 13.116 r_dihedral_angle_1_deg 4.681 r_scangle_it 4.578 r_mcangle_it 3.58 r_scbond_it 3.516 r_mcbond_it 2.758 r_angle_refined_deg 1.644 r_angle_other_deg 0.969 r_chiral_restr 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 716 Nucleic Acid Atoms 281 Solvent Atoms 131 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling SHELX phasing