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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3TXE
  •   Crystallization Hide
    Crystallization Experiments
    Method BATCH
    pH 4.7
    Temperature 295.0
    Details 49 mg HEWL + 3.7 mg carboplatin in 1 mL 0.04 M sodium acetate + 1 mL 10% sodium chloride, with paratone as cryoprotectant, pH 4.7, BATCH, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 78.51 α = 90
    b = 78.51 β = 90
    c = 37.44 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 RIGAKU RAXIS IV
    Details Osmic Confocal Max-Flux, blue configuration
    Collection Date 2011-02-17
     
    Diffraction Radiation
    Monochromator NONE
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 4.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.7
    Resolution(Low) 55.51
    Number Reflections(All) 13378
    Number Reflections(Observed) 12432
    Percent Possible(Observed) 92.9
    R Merge I(Observed) 0.084
    B(Isotropic) From Wilson Plot 31.0
    Redundancy 18.99
     
    High Resolution Shell Details
    Resolution(High) 1.7
    Resolution(Low) 1.76
    Percent Possible(All) 98.0
    R Merge I(Observed) 0.395
    Mean I Over Sigma(Observed) 4.2
    Redundancy 14.01
    Number Unique Reflections(All) 13378
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.7
    Resolution(Low) 55.51
    Cut-off Sigma(I) 2.0
    Cut-off Sigma(F) 4.0
    Number of Reflections(all) 13378
    Number of Reflections(Observed) 12432
    Number of Reflections(R-Free) 642
    Percent Reflections(Observed) 97.73
    R-Factor(All) 0.2116
    R-Factor(Observed) 0.20291
    R-Work 0.20001
    R-Free 0.25855
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 31.03
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7
    Shell Resolution(Low) 1.744
    Number of Reflections(R-Free) 35
    Number of Reflections(R-Work) 726
    R-Factor(R-Work) 0.273
    R-Factor(R-Free) 0.319
    Percent Reflections(Observed) 79.69
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.496
    r_scbond_it 2.948
    r_mcangle_it 1.696
    r_mcbond_it 1.004
    r_gen_planes_refined 0.008
    r_chiral_restr 0.137
    r_dihedral_angle_4_deg 18.217
    r_dihedral_angle_3_deg 13.652
    r_dihedral_angle_2_deg 36.359
    r_dihedral_angle_1_deg 6.703
    r_angle_refined_deg 1.677
    r_bond_refined_d 0.021
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1001
    Nucleic Acid Atoms 0
    Heterogen Atoms 41
    Solvent Atoms 125
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) d*TREK
    Data Reduction (data scaling) d*TREK
    Structure Solution PHASER MOLECULAR REPLACEMENT
    Structure Refinement REFMAC 5.5.0110
     
    Software
    refinement REFMAC version: 5.5.0110
    model building PHASER version: MOLECULAR REPLACEMENT
    data collection CrystalClear