POP-OUT | CLOSE
 
X-RAY DIFFRACTION
Materials and Methods page
1PJM
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 293.0
    Details Sodium Citrate, DTT, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 79 α = 90
    b = 89.18 β = 90
    c = 100.99 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 IMAGE PLATE
    Type MARRESEARCH
    Collection Date 2000-08-10
     
    Diffraction Radiation
    Monochromator Mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RU200
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.5
    Resolution(Low) 99
    Number Reflections(All) 25382
    Number Reflections(Observed) 25382
    Percent Possible(Observed) 96.0
    R Merge I(Observed) 0.073
    B(Isotropic) From Wilson Plot 53.2
    Redundancy 9.8
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.59
    Percent Possible(All) 98.3
    R Merge I(Observed) 0.403
    Mean I Over Sigma(Observed) 2.8
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 2.5
    Resolution(Low) 29.57
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 24323
    Number of Reflections(Observed) 24323
    Number of Reflections(R-Free) 1169
    Percent Reflections(Observed) 96.0
    R-Factor(Observed) 0.204
    R-Work 0.204
    R-Free 0.239
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 46.2
    Anisotropic B[1][1] -0.6
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -6.09
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 6.69
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.66
    Number of Reflections(Observed) 4075
    Number of Reflections(R-Free) 198
    Number of Reflections(R-Work) 3877
    R-Factor(R-Work) 0.264
    R-Factor(R-Free) 0.299
    R-Free Error 0.021
    Percent Reflections(Observed) 98.2
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 2.55
    c_scbond_it 1.74
    c_mcangle_it 1.85
    c_mcbond_it 1.11
    c_improper_angle_d 0.94
    c_bond_d 0.006
    c_angle_deg 1.2
    c_dihedral_angle_d 18.7
     
    Coordinate Error
    Luzzati ESD(Observed) 0.28
    Luzzati Sigma A(Observed) 0.25
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.35
    Luzzati Sigma A(R-Free Set) 0.31
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3400
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 173
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0