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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4F1K
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 293.0
    Details 25% PEG 3350, 0.1M HEPES, 0.2M lithium sulfate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 89.43 α = 90
    b = 89.43 β = 90
    c = 104.23 γ = 90
     
    Space Group
    Space Group Name:    P 43 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Details THE OPTICAL ELEMENTS CONSIST OF A VERTICALLY COLLIMATING MIRROR (M1, FOCUS AT INFINITY) FOLLOWED BY A BARTELS MONOCHROMATOR WITH DUAL CHANNEL CUT CRYSTALS (DCCM) IN (+--+) GEOMETRY, AND A TOROIDAL MIRROR (M2) TO VERTICALLY AND HORIZONTALLY FOCUS THE BEAM AT THE SAMPLE POSITION (WITH 2:1 HORIZONTAL DEMAGNIFICATION)
    Collection Date 2010-05-24
     
    Diffraction Radiation
    Monochromator BARTELS MONOCHROMATOR
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06DA
    Wavelength List 1.0
    Site SLS
    Beamline X06DA
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) -3.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.87
    Resolution(Low) 50
    Number Reflections(All) 66642
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.1
    Redundancy 4.28
     
    High Resolution Shell Details
    Resolution(High) 1.87
    Resolution(Low) 1.99
    Percent Possible(All) 98.0
    R Merge I(Observed) 0.645
    Mean I Over Sigma(Observed) 2.24
    Redundancy 4.18
    Number Unique Reflections(All) 10559
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SIRAS
    reflnsShellList 1.87
    Resolution(Low) 30.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 35374
    Number of Reflections(Observed) 33607
    Number of Reflections(R-Free) 1767
    Percent Reflections(Observed) 100.0
    R-Factor(All) 0.19013
    R-Factor(Observed) 0.19013
    R-Work 0.18769
    R-Free 0.23663
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 13.7
    Anisotropic B[1][1] -0.08
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.08
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.16
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.872
    Shell Resolution(Low) 1.921
    Number of Reflections(Observed) 2367
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2367
    R-Factor(R-Work) 0.212
    R-Factor(R-Free) 0.283
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.522
    r_scbond_it 2.376
    r_mcangle_it 1.389
    r_mcbond_other 0.272
    r_mcbond_it 1.018
    r_symmetry_hbond_refined 0.166
    r_symmetry_vdw_other 0.26
    r_symmetry_vdw_refined 0.113
    r_xyhbond_nbd_refined 0.162
    r_nbtor_other 0.086
    r_nbtor_refined 0.171
    r_nbd_other 0.199
    r_bond_refined_d 0.017
    r_bond_other_d 0.002
    r_angle_refined_deg 1.601
    r_angle_other_deg 1.041
    r_dihedral_angle_1_deg 6.428
    r_dihedral_angle_2_deg 37.705
    r_dihedral_angle_3_deg 12.114
    r_dihedral_angle_4_deg 9.183
    r_chiral_restr 0.107
    r_gen_planes_refined 0.006
    r_gen_planes_other 0.001
    r_nbd_refined 0.203
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3074
    Nucleic Acid Atoms 0
    Heterogen Atoms 84
    Solvent Atoms 281
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution SHARP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building SHARP
    data collection MAR345dtb