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Structural basis for the recognition of attP substrates by P4-like integrases
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3JTZ PDB ENTRY 3JTZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 65% MPD, 0.1 M sodium acetate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 46.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.9 α = 90 b = 69.49 β = 90 c = 83.74 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 90 CCD MARRESEARCH monochromator, mirror 2009-08-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 2.1 45.8 81.5 0.066 17.09 4.2 21347 14688 2 2
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 3JTZ 2.21 19.73 13182 695 75.64 0.23625 0.23404 0.2275 0.28021 0.2782 RANDOM 25.701
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] -0.27 0.17 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.927 r_dihedral_angle_3_deg 17.414 r_dihedral_angle_4_deg 17.13 r_dihedral_angle_1_deg 6.153 r_angle_refined_deg 2.847 r_scangle_it 1.902 r_mcangle_it 1.143 r_scbond_it 1.112 r_mcbond_it 0.618 r_chiral_restr 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.927 r_dihedral_angle_3_deg 17.414 r_dihedral_angle_4_deg 17.13 r_dihedral_angle_1_deg 6.153 r_angle_refined_deg 2.847 r_scangle_it 1.902 r_mcangle_it 1.143 r_scbond_it 1.112 r_mcbond_it 0.618 r_chiral_restr 0.37 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1184 Nucleic Acid Atoms 1119 Solvent Atoms 45 Heterogen Atoms
Software Software Software Name Purpose MAR345dtb data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling