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Crystal structure of the Fe(II)/alpha-ketoglutarate dependent taurine dioxygenase from Pseudomonas putida KT2440
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PVJ pdb entry 3PVJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 289 reservoir solution: 15 % (w/v) PEG 1,000, 40 % (v/v) PEG 400, 0.15 M NaK phosphate, 0.1 M imidazole chloride
protein solution: 27 mg/ml protein in 25 mM Tris/HCl (pH 7.7)
drop set up: 0.3 l + 0.3 l, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 3.12 60.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.093 α = 90 b = 112.093 β = 90 c = 214.018 γ = 120
Symmetry Space Group P 32 2 1
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 RAYONIX MX-225 2010-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.57 30 99.9 0.084 17.17 5.5 51026 50975 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.57 2.64 100 0.486 5.6 3710
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT pdb entry 3PVJ 2.57 30 2 50320 50270 2514 99.9 0.1802 0.1778 0.1727 0.2253 0.2187 random
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] -3.3437 -3.3437 6.6875
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.395 f_angle_d 0.729 f_chiral_restr 0.051 f_plane_restr 0.005 f_bond_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8776 Nucleic Acid Atoms Solvent Atoms 402 Heterogen Atoms 40
Software Software Software Name Purpose XDS data scaling PHASER phasing PHENIX refinement XDS data reduction