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The crystal structure of Trichuris muris p43
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Inhouse
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.9 277 0.1 M Carboxylic acids 0.1 M Buffer System 3 8.5 50 % v/v Precipitant Mix 1 Morpheus G9 Molecular Dimensions
Precipitant Mix 1 P500MME_P20K 40% v/v PEG 500* MME; 20 % w/v PEG 20000,
Buffer System 1 1.0M 6.5 Imidazole; MES
monohydrate (acid),
Carboxylic acids
0.2M Sodium formate; 0.2M Ammonium acetate; 0.2M Sodium citrate
tribasic dihydrate; 0.2M Sodium potassium tartrate tetrahydrate;
0.2M Sodium oxamate
Crystal Properties Matthews coefficient Solvent content 2.84 56.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.682 α = 90 b = 164.834 β = 110.37 c = 61.169 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 100 PIXEL DECTRIS PILATUS3 S 6M 2015-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.65 57.34 97.72 0.1267 0.1347 0.045 0.998 9.57 8.7 103460 20.12
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.709 94.26 1.953 2.078 0.7 0.528 1.06 8.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE Inhouse 1.65 57.34 1.35 103443 5140 97.71 0.1523 0.1504 0.1542 0.1887 0.1916 Random 32.38
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 4.6118 f_angle_d 1.1938 f_chiral_restr 0.0604 f_bond_d 0.0133 f_plane_restr 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5519 Nucleic Acid Atoms Solvent Atoms 693 Heterogen Atoms 184
Software Software Software Name Purpose PHENIX refinement DIALS data reduction DIALS data scaling PHASER phasing