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Crystal Structure Analysis of the B-DNA Dodecamer CGCGAATT(ethenoC)GCG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EHV NDB ENTRY BD0032
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 277 Drop: MPD, potassium chloride, spermine tetrahydrochloride, cacodylate; Reservoir: MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 2.34 47.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.723 α = 90 b = 26.723 β = 90 c = 101.544 γ = 120
Symmetry Space Group P 32 1 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 CCD ADSC QUANTUM 4 2000-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
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 1.79 50 99.4 0.061 22 4 4113 5
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 1.79 1.85 100 0.187 2 4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 ISOMORPHOUS REPLACEMENT THROUGHOUT NDB ENTRY BD0032 1.79 20 3913 200 99.6 0.164 0.161 0.1651 0.219 0.2112 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 137 303.75
RMS Deviations Key Refinement Restraint Deviation s_angle_d 2.6 s_similar_adp_cmpnt 0.143 s_anti_bump_dis_restr 0.065 s_from_restr_planes 0.025 s_bond_d 0.02 s_non_zero_chiral_vol 0.007 s_similar_dist s_zero_chiral_vol s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 245 Solvent Atoms 73 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling X-PLOR model building SHELXL-97 refinement X-PLOR phasing