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X-RAY DIFFRACTION
Materials and Methods page
4AB9
  •   Crystallization Hide
    Crystallization Experiments
    pH 5.8
    Details 22.5% PEG 3350, 0.18 M AMMONIUM SULFATE, 0.12 M SODIUM THIOCYANATE, 0.09 M BIS-TRIS PH 5.5, 0.01 M TRIS PH 8.5 (FINAL MEASURED PH=5.82). THE PROTEIN WAS AT 2 MM (47 MG/ML), WITH 4 MM BENZYLAMINE AND 10 MM CALCIUM CHLORIDE ADDED TO STABILIZE IT. THE CRYSTALLIZATIONS WERE SET UP WITH A PHOENITO PROTOCOL (NEWMAN ET AL. 2008), WHERE A PHOENIX ROBOT (ART ROBBINS INSTRUMENTS, SUNNYSIDE, CA) WAS USED TO DISPENSE THE PROTEIN INTO AN SD2 CRYSTALLIZATION PLATE (PRE-FILLED WITH 50 ML RESERVOIR SOLUTION) AND A MOSQUITO ROBOT (TTP LABTECH, MELBOURN, UK) WAS USED TO DISPENSE THE RESERVOIR SOLUTION AND SEED STOCK OVER THE PROTEIN DROPLET.
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 54.75 α = 90
    b = 58.5 β = 90
    c = 66.99 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC
    Collection Date 2009-12-21
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX1
    Wavelength 0.95661
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.2
    Resolution(Low) 44.1
    Number Reflections(Observed) 67947
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.07
    Redundancy 7.0
     
    High Resolution Shell Details
    Resolution(High) 1.2
    Resolution(Low) 1.26
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.15
    Mean I Over Sigma(Observed) 10.8
    Redundancy 6.7
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.2
    Resolution(Low) 44.06
    Number of Reflections(Observed) 64426
    Number of Reflections(R-Free) 3439
    Percent Reflections(Observed) 99.94
    R-Factor(Observed) 0.14118
    R-Work 0.14007
    R-Free 0.1624
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 8.259
    Anisotropic B[1][1] 0.07
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.04
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.2
    Shell Resolution(Low) 1.231
    Number of Reflections(R-Free) 249
    Number of Reflections(R-Work) 4408
    R-Factor(R-Work) 0.147
    R-Factor(R-Free) 0.159
    Percent Reflections(Observed) 99.94
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.016
    r_chiral_restr 0.436
    r_dihedral_angle_4_deg 21.077
    r_dihedral_angle_3_deg 11.994
    r_dihedral_angle_2_deg 42.812
    r_dihedral_angle_1_deg 6.953
    r_angle_refined_deg 2.566
    r_bond_refined_d 0.029
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1629
    Nucleic Acid Atoms 0
    Heterogen Atoms 33
    Solvent Atoms 418
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER