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Structure of a DNA analog of the primer for HIV-1 RT second strand synthesis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other IDEAL B-DNA HELIX OF SEQUENCE CAAAGAAAAG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 VAPOR DIFFUSION, SITTING DROP, temperature 277.00K
Crystal Properties Matthews coefficient Solvent content 1.63 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.82 α = 90 b = 28.28 β = 103.87 c = 72.49 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 IMAGE PLATE RIGAKU RAXIS II MIRROR MSC-YALE 1996-09-01 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 1.85 100 93.8 0.058 9686 24.6
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) 1.85 1.92 91 0.24 5 3
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) Mean Isotropic B X-RAY DIFFRACTION MIR PHASE ANALYSIS IDEAL B-DNA HELIX OF SEQUENCE CAAAGAAAAG 1.85 8 2 9630 93 0.233 0.2453
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]
RMS Deviations Key Refinement Restraint Deviation t_dihedral_angle_d 15.95 t_it 4.5 t_angle_deg 2.134 t_nbd 0.016 t_bond_d 0.015 t_gen_planes 0.007 t_incorr_chiral_ct t_pseud_angle t_trig_c_planes
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 1212 Solvent Atoms 138 Heterogen Atoms
Software Software Software Name Purpose MLPHARE phasing TNT refinement DENZO data reduction SCALEPACK data scaling