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X-RAY DIFFRACTION
Materials and Methods page
4H7P
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 5.5
    Temperature 290.0
    Details EmeraldBio JCSG+ screen h7: 25% PEG 3350, 200mM ammonium sulphate, 100mM BisTris pH 5.5; LemaA.01212.a.A1.P001468 at 20mg/ml, VAPOR DIFFUSION, SITTING DROP, temperature 290K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 64.58 α = 90
    b = 65.66 β = 110.11
    c = 77.65 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2012-07-28
     
    Diffraction Radiation
    Monochromator Double-crystal, Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 5.0.2
    Wavelength List 1.0000
    Site ALS
    Beamline 5.0.2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.3
    Resolution(Low) 50
    Number Reflections(Observed) 146529
    Percent Possible(Observed) 97.9
    R Merge I(Observed) 0.047
    B(Isotropic) From Wilson Plot 21.987
    Redundancy 9.7
     
    High Resolution Shell Details
    Resolution(High) 1.3
    Resolution(Low) 1.33
    Percent Possible(All) 94.0
    R Merge I(Observed) 0.336
    Mean I Over Sigma(Observed) 4.11
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.3
    Resolution(Low) 28.92
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 149715
    Number of Reflections(Observed) 146506
    Number of Reflections(R-Free) 7367
    Percent Reflections(Observed) 97.95
    R-Factor(All) 0.1534
    R-Factor(Observed) 0.1534
    R-Work 0.1522
    R-Free 0.1785
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic, TLS
    Mean Isotropic B Value 21.4934
    Anisotropic B[1][1] 0.48
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.57
    Anisotropic B[2][2] -0.1
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.47
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3
    Shell Resolution(Low) 1.334
    Number of Reflections(R-Free) 533
    Number of Reflections(R-Work) 9815
    R-Factor(R-Work) 0.221
    R-Factor(R-Free) 0.245
    Percent Reflections(Observed) 93.99
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.009
    r_chiral_restr 0.102
    r_dihedral_angle_4_deg 15.204
    r_dihedral_angle_3_deg 11.217
    r_dihedral_angle_2_deg 32.581
    r_dihedral_angle_1_deg 6.372
    r_angle_other_deg 0.847
    r_angle_refined_deg 1.656
    r_bond_other_d 0.001
    r_bond_refined_d 0.013
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4438
    Nucleic Acid Atoms 0
    Heterogen Atoms 25
    Solvent Atoms 635
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BOS
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement Phaser version: 2.5.1
    data reduction Xscale