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A Backbone binding DNA complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 355D 355D(NDB entry: bdl084)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.19mM [d(CGCGAATTCGCG)]2, 0.19mM TriplatinNC, 31mM sodium cacodylate (pH 6.5), 9.6mM magnesium chloride, 6.9% 2-methyl-2,4-pentanediol (MPD), equilibrated against a reservoir of 30% MPD, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.12 41.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 23.675 α = 90 b = 41.692 β = 90 c = 65.651 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 175 CCD ADSC QUANTUM 4 2003-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.05 NSLS X26C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.07 50 90.1 12.5 23727 21375 1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 355D(NDB entry: bdl084) 1.13 5.5 2 20317 18995 2112 81.9 0.1879 0.1818 0.2321 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 647.55
RMS Deviations Key Refinement Restraint Deviation s_similar_adp_cmpnt 0.042 s_angle_d 0.022 s_anti_bump_dis_restr 0.013 s_bond_d 0.012 s_rigid_bond_adp_cmpnt 0.004 s_from_restr_planes 0.0014 s_similar_dist s_zero_chiral_vol s_non_zero_chiral_vol s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 486 Solvent Atoms 125 Heterogen Atoms 50
Software Software Software Name Purpose SHELX model building SHELXL-97 refinement CBASS data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing