POP-OUT | CLOSE

An Information Portal to 110790 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2XJR
  •   Crystallization Hide
    Crystallization Experiments
    Details 0.5 M NACL, 0.05 M BISTRIS-PROPANE PH 7.2, 20% PEG 4000
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 46.46 α = 90
    b = 61.91 β = 90
    c = 106.43 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 2009-05-07
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-2
    Wavelength 0.933
    Site ESRF
    Beamline ID14-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.25
    Resolution(Low) 19.43
    Number Reflections(Observed) 85499
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.07
    B(Isotropic) From Wilson Plot 9.2
    Redundancy 10.7
     
    High Resolution Shell Details
    Resolution(High) 1.25
    Resolution(Low) 1.32
    Percent Possible(All) 99.2
    R Merge I(Observed) 0.59
    Mean I Over Sigma(Observed) 3.6
    Redundancy 7.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.25
    Resolution(Low) 19.35
    Number of Reflections(Observed) 83938
    Number of Reflections(R-Free) 1561
    Percent Reflections(Observed) 99.86
    R-Factor(Observed) 0.11369
    R-Work 0.11321
    R-Free 0.13996
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 10.392
    Anisotropic B[1][1] -0.7
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.09
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.61
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.25
    Shell Resolution(Low) 1.282
    Number of Reflections(R-Free) 95
    Number of Reflections(R-Work) 6035
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.206
    Percent Reflections(Observed) 98.3
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 1.023
    r_scangle_it 4.247
    r_scbond_it 3.072
    r_mcangle_it 3.424
    r_mcbond_other 1.223
    r_mcbond_it 2.383
    r_gen_planes_other 0.003
    r_gen_planes_refined 0.012
    r_chiral_restr 0.135
    r_dihedral_angle_4_deg 9.709
    r_dihedral_angle_3_deg 11.511
    r_dihedral_angle_2_deg 36.889
    r_dihedral_angle_1_deg 6.098
    r_angle_other_deg 1.449
    r_angle_refined_deg 2.06
    r_bond_other_d 0.001
    r_bond_refined_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1926
    Nucleic Acid Atoms 0
    Heterogen Atoms 56
    Solvent Atoms 428
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution REFMAC5
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building REFMAC5