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Anabaena HU-DNA corcrystal structure (TR3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1B8Z PDB ENTRY 1B8Z with nonidentical sidechains pruned back to a common atom
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 292 Peg 5000 monomethyl ether, glycerol, tris, jeffamine, potassium chloride, calcium chloride, sodium azide, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.61 52.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.441 α = 90 b = 93.062 β = 90 c = 100.342 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 100 CCD ADSC QUANTUM 4 2001-02-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 1.00 APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.9 100 72.4 0.041 7.6 20602 20602 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2.01 20.9 0.3 1.6
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 (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 THROUGHOUT PDB ENTRY 1B8Z with nonidentical sidechains pruned back to a common atom 1.9 25 28420 18562 941 68.62 0.24637 0.24415 0.2448 0.28788 0.2902 RANDOM 31.952
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] -1.57 5.48 -3.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.219 r_scangle_it 2.732 r_angle_refined_deg 1.745 r_scbond_it 1.725 r_mcangle_it 0.896 r_mcbond_it 0.483 r_symmetry_vdw_refined 0.262 r_nbd_refined 0.222 r_xyhbond_nbd_refined 0.202 r_chiral_restr 0.087
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.219 r_scangle_it 2.732 r_angle_refined_deg 1.745 r_scbond_it 1.725 r_mcangle_it 0.896 r_mcbond_it 0.483 r_symmetry_vdw_refined 0.262 r_nbd_refined 0.222 r_xyhbond_nbd_refined 0.202 r_chiral_restr 0.087 r_symmetry_hbond_refined 0.078 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1408 Nucleic Acid Atoms 791 Solvent Atoms 196 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling EPMR phasing