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Crystal structure of the IS608 transposase in complex with left end 26-mer DNA hairpin and a 6-mer DNA representing the left end cleavage site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VIH PDB ENTRY 2VIH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 6-10% PEG 600 AND 50 MM SODIUM CITRATE PH 5.0
Crystal Properties Matthews coefficient Solvent content 2.29 50.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.292 α = 90 b = 72.407 β = 90 c = 110.174 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 95 IMAGE PLATE RIGAKU IMAGE PLATE MULTILAYER FOCUSING OPTICS 2007-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 40 89.8 0.15 11.3 3.9 38044 17.3
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 1.95 64.2 0.27 4.6 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 2VIH 1.9 24.61 37220 1131 87.8 0.194 0.194 0.1925 0.227 0.2178 RANDOM 29.6
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] -1.66 1.98 -0.32
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scbond_it 9.78 c_scangle_it 8.98 c_angle_deg 3.6 c_mcangle_it 3.01 c_mcbond_it 1.76 c_improper_angle_d 1.39 c_bond_d 0.008 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scbond_it 9.78 c_scangle_it 8.98 c_angle_deg 3.6 c_mcangle_it 3.01 c_mcbond_it 1.76 c_improper_angle_d 1.39 c_bond_d 0.008 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2046 Nucleic Acid Atoms 1298 Solvent Atoms 275 Heterogen Atoms 3
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing