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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3OBK
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 289.0
    Details 90% PACT SCREEN CONDITION E4 + 10% ADDIT SCREEN D7: 0.18 M KSCN, 18% PEG 3350, 3% W/V DIAMINOOCTANE, 5 MM AMINOLEVULINIC ACID, TOGOA.17087.A.Y2 AT 6.3 MG/ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, pH 7.00, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 177.11 α = 90
    b = 187.17 β = 90
    c = 95.86 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2010-06-25
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 5.0.2
    Wavelength List 1.00
    Site ALS
    Beamline 5.0.2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.5
    Resolution(Low) 49.93
    Number Reflections(All) 110745
    Number Reflections(Observed) 109171
    Percent Possible(Observed) 98.6
    R Merge I(Observed) 0.115
    B(Isotropic) From Wilson Plot 31.45
    Redundancy 4.04
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.56
    Percent Possible(All) 90.3
    R Merge I(Observed) 0.538
    Mean I Over Sigma(Observed) 2.3
    Redundancy 3.56
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.5
    Resolution(Low) 49.93
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 110745
    Number of Reflections(Observed) 108861
    Number of Reflections(R-Free) 5439
    R-Factor(All) 0.18
    R-Factor(Observed) 0.18
    R-Work 0.177
    R-Free 0.232
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 23.16
    Anisotropic B[1][1] 1.7
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.25
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.45
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.56
    Number of Reflections(R-Free) 361
    Number of Reflections(R-Work) 6927
    R-Factor(R-Work) 0.273
    R-Factor(R-Free) 0.318
    Percent Reflections(Observed) 90.08
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.816
    r_scbond_it 1.678
    r_mcangle_it 0.974
    r_mcbond_other 0.123
    r_mcbond_it 0.503
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.007
    r_chiral_restr 0.08
    r_dihedral_angle_4_deg 20.266
    r_dihedral_angle_3_deg 15.417
    r_dihedral_angle_2_deg 39.506
    r_dihedral_angle_1_deg 6.107
    r_angle_other_deg 0.928
    r_angle_refined_deg 1.497
    r_bond_other_d 0.001
    r_bond_refined_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 21476
    Nucleic Acid Atoms 0
    Heterogen Atoms 228
    Solvent Atoms 586
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building PHASER
    data collection ADSC version: Quantum