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Crystal structure of GH3.12 from Arabidopsis thaliana in complex with AMPCPP and salicylate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EPM PDB ENTRY 4EPM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 288 20% PEG3350, 0.25 M ammonium acetate, 0.1 M sodium acetate, 5 mM TCEP, 5 mM salicylate, 5 mM AMPCPP, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.16 42.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.36 α = 90 b = 114.088 β = 90 c = 157.976 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 MARMOSAIC 225 mm CCD 2011-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873 ESRF ID23-2
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 2.81 92.49 99.7 0.26 0.26 8 28243 28172 2 2
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 2.81 3 99.5 0.7 2.73
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 4EPM 2.81 58.004 1.35 28243 28170 1418 99.75 0.2014 0.1979 0.1976 0.2666 0.2644
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 15.863 f_angle_d 1.547 f_chiral_restr 0.086 f_bond_d 0.017 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8316 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 83
Software Software Software Name Purpose EDNA data collection PHASER phasing PHENIX refinement XDS data reduction XSCALE data scaling