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Crystal structure of Agrobacterium tumefaciens VirE2 in complex with its chaperone VirE1: a novel fold and implications for DNA binding
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH UNDER OIL 7 292 20% PEG 6000, 0.2M NH4Cl, 1% Triton X-405, pH 7.0, MICROBATCH UNDER OIL, temperature 292K
Crystal Properties Matthews coefficient Solvent content 1.96 37.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.02 α = 90 b = 96.271 β = 90 c = 112.483 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 315 Single Silicon (111) monochromator and toroidal focusing mirror 2006-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.97900, 0.98000, 0.97600 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.3 50 99.8 0.109 0.099 16.8 7.1 23980
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 99.9 0.386 0.403 4.6 6.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.3 48.14 23872 23873 1288 99.55 0.21178 0.20931 0.2078 0.25576 0.2532 RANDOM 32.3
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] -0.75 0.22 0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.973 r_dihedral_angle_4_deg 21.046 r_dihedral_angle_3_deg 18.404 r_dihedral_angle_1_deg 8.409 r_scangle_it 5.266 r_scbond_it 3.44 r_angle_refined_deg 2.26 r_mcangle_it 2.251 r_mcbond_it 1.45 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.973 r_dihedral_angle_4_deg 21.046 r_dihedral_angle_3_deg 18.404 r_dihedral_angle_1_deg 8.409 r_scangle_it 5.266 r_scbond_it 3.44 r_angle_refined_deg 2.26 r_mcangle_it 2.251 r_mcbond_it 1.45 r_nbtor_refined 0.308 r_nbd_refined 0.24 r_symmetry_vdw_refined 0.216 r_chiral_restr 0.186 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.076 r_bond_refined_d 0.025 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3380 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling SHELXD phasing