POP-OUT | CLOSE

An Information Portal to 105906 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IDL
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 4.5
    Details Hampton Research Index 8 (0.1 M Sodium Acetate Trihydrate pH 4.5, 3.0 M NaCl), VAPOR DIFFUSION, SITTING DROP
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 56.44 α = 90
    b = 51.86 β = 107.81
    c = 46.48 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RIGAKU SATURN 944
    Collection Date 2007-11-16
     
    Diffraction Radiation
    Monochromator VariMax HF (Osmic) Monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007 HF
    Wavelength List 1.54
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.09
    Resolution(Low) 26.87
    Number Reflections(All) 7796
    Number Reflections(Observed) 7586
    Percent Possible(Observed) 98.7
    R Merge I(Observed) 0.065
    Redundancy 3.6
     
    High Resolution Shell Details
    Resolution(High) 2.09
    Resolution(Low) 2.16
    Percent Possible(All) 87.0
    R Merge I(Observed) 0.185
    Mean I Over Sigma(Observed) 5.92
    R-Sym I(Observed) 0.185
    Redundancy 3.2
    Number Unique Reflections(All) 696
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.09
    Resolution(Low) 26.87
    Number of Reflections(Observed) 7235
    Number of Reflections(R-Free) 349
    Percent Reflections(Observed) 98.92
    R-Factor(Observed) 0.20668
    R-Work 0.20591
    R-Free 0.2218
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 18.895
    Anisotropic B[1][1] 0.05
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.03
    Anisotropic B[2][2] 0.1
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.17
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.09
    Shell Resolution(Low) 2.144
    Number of Reflections(R-Free) 21
    Number of Reflections(R-Work) 482
    R-Factor(R-Work) 0.223
    R-Factor(R-Free) 0.293
    Percent Reflections(Observed) 86.72
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.004
    r_chiral_restr 0.064
    r_dihedral_angle_4_deg 23.817
    r_dihedral_angle_3_deg 12.327
    r_dihedral_angle_2_deg 38.291
    r_dihedral_angle_1_deg 5.273
    r_angle_refined_deg 1.092
    r_bond_refined_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 941
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 59
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMoRE
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building AMoRE
    data collection CrystalClear