POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2YCR
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.8
    Details 0.1M HEPES PH 7.8, 0.1M MAGNESIUM NITRATE, 14% W/V PEG 3350, 16% V/V ETHYLENE GLYCOL
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 90.8 α = 90
    b = 90.8 β = 90
    c = 93.38 γ = 120
     
    Space Group
    Space Group Name:    P 32 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2007-06-09
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength 1.0
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.2
    Resolution(Low) 50
    Number Reflections(Observed) 22945
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.07
    Redundancy 7.4
     
    High Resolution Shell Details
    Resolution(High) 2.2
    Resolution(Low) 2.28
    Percent Possible(All) 99.5
    R Merge I(Observed) 0.51
    Mean I Over Sigma(Observed) 4.6
    Redundancy 7.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 78.57
    Number of Reflections(Observed) 21747
    Number of Reflections(R-Free) 1178
    Percent Reflections(Observed) 99.63
    R-Factor(Observed) 0.20206
    R-Work 0.20042
    R-Free 0.23338
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 45.714
    Anisotropic B[1][1] 0.21
    Anisotropic B[1][2] 0.11
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.21
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.32
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.201
    Shell Resolution(Low) 2.258
    Number of Reflections(R-Free) 80
    Number of Reflections(R-Work) 1584
    R-Factor(R-Work) 0.247
    R-Factor(R-Free) 0.282
    Percent Reflections(Observed) 99.22
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.063
    r_scbond_it 1.846
    r_mcangle_it 1.298
    r_mcbond_other 0.134
    r_mcbond_it 0.692
    r_gen_planes_other 0.002
    r_gen_planes_refined 0.006
    r_chiral_restr 0.089
    r_dihedral_angle_4_deg 20.533
    r_dihedral_angle_3_deg 15.674
    r_dihedral_angle_2_deg 35.942
    r_dihedral_angle_1_deg 5.166
    r_angle_other_deg 0.88
    r_angle_refined_deg 1.454
    r_bond_other_d 0.001
    r_bond_refined_d 0.013
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2252
    Nucleic Acid Atoms 0
    Heterogen Atoms 38
    Solvent Atoms 145
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL3000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0104
     
    Software
    refinement REFMAC version: 5.5.0104
    model building MOLREP