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Crystal Structure of p-iodoHoechst bound to d(CGCAAATTTGCG)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 263D NDB ID GDL039
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 292 HANGING DROP, 19 DEG C
Crystal Properties Matthews coefficient Solvent content 2.07 43.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 24.638 α = 90 b = 40.408 β = 90 c = 64.344 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 113 IMAGE PLATE MAR scanner 345 mm plate OSMIC OPTICS 2001-01-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54179
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 1.95 10 94.2 0.057 0.049 22.17 4.21 4783
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 91.7 0.226 0.223 5.62
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 FREE R-VALUE NDB ID GDL039 1.95 10 4270 4270 477 85.4 0.1856 0.1783 0.1783 0.1866 0.2972 0.2881 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 653.79
RMS Deviations Key Refinement Restraint Deviation s_similar_adp_cmpnt 0.069 s_angle_d 0.027 s_anti_bump_dis_restr 0.011 s_from_restr_planes 0.0086 s_bond_d 0.008 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 486 Solvent Atoms 135 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing SHELXL-97 refinement