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Structure of the sporulation specific transcription factor Ndt80 bound to DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 PEG 400, calcium chloride, sodium chloride, bis-tris propane, DTT, spermine, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.32 47.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.143 α = 90 b = 78.887 β = 90 c = 161.522 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 105 CCD ADSC QUANTUM 210 2001-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.98008 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.4 100 99.8 0.051 35 38 88384 88384
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 97.8 0.493 3 5.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.4 81.65 83611 83611 4438 99.81 0.19544 0.19544 0.19484 0.2024 0.20636 0.2127 RANDOM 19.621
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] 0.1 0.82 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.107 r_dihedral_angle_1_deg 4.713 r_scangle_it 3.359 r_scbond_it 2.229 r_mcangle_it 2.081 r_angle_refined_deg 1.515 r_mcbond_it 1.132 r_angle_other_deg 0.948 r_symmetry_vdw_refined 0.276 r_symmetry_vdw_other 0.258
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.107 r_dihedral_angle_1_deg 4.713 r_scangle_it 3.359 r_scbond_it 2.229 r_mcangle_it 2.081 r_angle_refined_deg 1.515 r_mcbond_it 1.132 r_angle_other_deg 0.948 r_symmetry_vdw_refined 0.276 r_symmetry_vdw_other 0.258 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.215 r_nbd_other 0.21 r_xyhbond_nbd_refined 0.136 r_xyhbond_nbd_other 0.106 r_chiral_restr 0.098 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2330 Nucleic Acid Atoms 568 Solvent Atoms 342 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing REFMAC refinement