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X-RAY DIFFRACTION
Materials and Methods page
4ABD
  •   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 = 54.08 α = 90
    b = 58.35 β = 90
    c = 66.89 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 2009-12-04
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX1
    Wavelength 0.95373
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.23
    Resolution(Low) 44
    Number Reflections(Observed) 60293
    Percent Possible(Observed) 97.5
    R Merge I(Observed) 0.06
    Redundancy 7.1
     
    High Resolution Shell Details
    Resolution(High) 1.23
    Resolution(Low) 1.3
    Percent Possible(All) 88.5
    R Merge I(Observed) 0.35
    Mean I Over Sigma(Observed) 4.9
    Redundancy 6.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.25
    Resolution(Low) 43.97
    Number of Reflections(Observed) 55351
    Number of Reflections(R-Free) 2962
    Percent Reflections(Observed) 98.42
    R-Factor(Observed) 0.14629
    R-Work 0.1453
    R-Free 0.16471
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 9.427
    Anisotropic B[1][1] 0.11
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.07
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.04
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.25
    Shell Resolution(Low) 1.282
    Number of Reflections(R-Free) 190
    Number of Reflections(R-Work) 3667
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.201
    Percent Reflections(Observed) 92.96
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.015
    r_chiral_restr 0.158
    r_dihedral_angle_4_deg 22.943
    r_dihedral_angle_3_deg 11.824
    r_dihedral_angle_2_deg 40.481
    r_dihedral_angle_1_deg 7.151
    r_angle_refined_deg 2.577
    r_bond_refined_d 0.028
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1629
    Nucleic Acid Atoms 0
    Heterogen Atoms 41
    Solvent Atoms 299
     
     
  •   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