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X-RAY DIFFRACTION
Materials and Methods page
2YHE
  •   Crystallization Hide
    Crystallization Experiments
    pH 4.5
    Details 4 MG/ML PISA1, 18 % W/V PEG 2000, 0.42 MM SODIUM ACETATE PH 4.5 .
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 74.73 α = 90
    b = 200.59 β = 90
    c = 245.33 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 (MX-225)
    Type MARRESEARCH
    Collection Date 2009-04-26
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type EMBL/DESY, HAMBURG BEAMLINE X12
    Wavelength 1.1806
    Site EMBL/DESY, HAMBURG
    Beamline X12
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.7
    Resolution(Low) 19.91
    Number Reflections(Observed) 102022
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.17
    B(Isotropic) From Wilson Plot 53.427
    Redundancy 10.1
     
    High Resolution Shell Details
    Resolution(High) 2.7
    Resolution(Low) 2.85
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.8
    Mean I Over Sigma(Observed) 1.0
    Redundancy 9.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.7
    Resolution(Low) 19.91
    Number of Reflections(Observed) 96842
    Number of Reflections(R-Free) 5090
    Percent Reflections(Observed) 99.99
    R-Factor(Observed) 0.18492
    R-Work 0.18252
    R-Free 0.23049
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 47.746
    Anisotropic B[1][1] -1.26
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.3
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.04
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7
    Shell Resolution(Low) 2.769
    Number of Reflections(R-Free) 373
    Number of Reflections(R-Work) 7002
    R-Factor(R-Work) 0.26
    R-Factor(R-Free) 0.331
    Percent Reflections(Observed) 99.97
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 12.52
    r_scbond_it 8.645
    r_mcangle_it 5.424
    r_mcbond_it 3.351
    r_nbd_refined 0.203
    r_gen_planes_refined 0.009
    r_chiral_restr 0.164
    r_dihedral_angle_4_deg 19.399
    r_dihedral_angle_3_deg 19.686
    r_dihedral_angle_2_deg 38.684
    r_dihedral_angle_1_deg 2.924
    r_angle_refined_deg 1.834
    r_bond_refined_d 0.014
    r_nbtor_refined 0.302
    r_xyhbond_nbd_refined 0.142
    r_metal_ion_refined 0.087
    r_symmetry_vdw_refined 0.207
    r_symmetry_hbond_refined 0.136
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 29668
    Nucleic Acid Atoms 0
    Heterogen Atoms 42
    Solvent Atoms 1166
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building PHASER