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Structure of a two-domain NRPS fusion protein containing the EntE adenylation domain and EntB aryl-carrier protein from enterobactin biosynthesis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MD9 Mutated DhbE (pdb code 1MD9) with C-terminal domain rotated and pdb entry code 2FQ1 experimental model PDB 2FQ1 Mutated DhbE (pdb code 1MD9) with C-terminal domain rotated and pdb entry code 2FQ1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microbatch under oil 6 293 1:1 mixture of protein and 20-30% PEG 3350, 100 mM NH4I, 50 mM MES , pH 6.0, microbatch under oil, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.75 55.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 160.575 α = 90 b = 101.771 β = 107.06 c = 240.678 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 CCD MARMOSAIC 325 mm CCD SSRL 11-1 2007-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1
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 3.1 40 99.4 0.068 13 3.7 135141 134330 -3 90
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 3.1 3.2 100 0.474 1.8 3.7 12070
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT Mutated DhbE (pdb code 1MD9) with C-terminal domain rotated and pdb entry code 2FQ1 3.1 39.269 1.34 135717 134306 6385 98.96 0.2203 0.2179 0.2639 0.2647 Rfree chosen in thin shells with SHELX
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] 1.4217 -0.6087 3.9582 -5.3798
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.753 f_angle_d 1.356 f_chiral_restr 0.084 f_bond_d 0.01 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 44567 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 545
Software Software Software Name Purpose PHENIX refinement PHASER phasing BALBES phasing REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling