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Biochemical and structural characterisation of a novel manganese- dependent hydroxynitrile lyase from bacteria
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F4P PDB ENTRY 2F4P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10%(W/V) PEG 8000, 20%(V/V) ETHYLENE GLYCOL, 0.02 M EACH OF THE AMINO ACIDS DL-ALA, DL-LYS, DL-SER, L-GLU AND GLYCINE, 0.1 M MES IMIDAZOLE BUFFER PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.36 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.31 α = 90 b = 254.78 β = 90 c = 82.47 γ = 90
Symmetry Space Group C 2 2 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 315r 2011-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.46 37.72 99.3 0.12 11.3 7.3 48423 3 36.67
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 2.46 2.52 99.8 0.58 3.6 7.5
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 2F4P 2.46 37.722 1.34 48400 2447 99.31 0.1767 0.1738 0.2329 0.2402
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.183 f_angle_d 1.216 f_chiral_restr 0.08 f_bond_d 0.015 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8048 Nucleic Acid Atoms Solvent Atoms 707 Heterogen Atoms 8
Software Software Software Name Purpose PHENIX refinement XDS data reduction xia2 data reduction XSCALE data scaling BALBES phasing