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Crystal structure of the IS608 transposase in complex with the complete Right end 35-mer DNA and manganese
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 5.5 20-25% PEG 3350, 0.1 M MES PH 5.5, AND 0.1 M AMMONIUM ACETATE
Crystal Properties Matthews coefficient Solvent content 2.35 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.55 α = 90 b = 95.705 β = 90 c = 98.561 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 MIRROR 2006-11-20 M SINGLE WAVELENGTH
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 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 2.4 50 98.3 0.1 13.7 3.8 22916 28.1
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 2.4 2.49 94.9 0.42 2.7 3.6
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-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 2.4 20.04 21562 844 0.186 0.1801 0.231 0.2177 RANDOM 30
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] 1.84 -1.2 -0.64
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 8.37 c_scbond_it 8.23 c_mcangle_it 3.11 c_angle_deg 2.7 c_mcbond_it 1.87 c_improper_angle_d 1.32 c_bond_d 0.008 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 8.37 c_scbond_it 8.23 c_mcangle_it 3.11 c_angle_deg 2.7 c_mcbond_it 1.87 c_improper_angle_d 1.32 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 2144 Nucleic Acid Atoms 1434 Solvent Atoms 182 Heterogen Atoms 3
Software Software Software Name Purpose CNX refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing