POP-OUT | CLOSE

An Information Portal to 108957 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2B1F
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.2
    Temperature 295.0
    Details Ethanol, Tris-HCl, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 47.66 α = 90
    b = 47.7 β = 90
    c = 56.52 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
    Type ADSC QUANTUM 4
    Collection Date 2004-11-10
     
    Diffraction Radiation
    Monochromator GRAPHITE
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X4A
    Wavelength List 0.9788
    Site NSLS
    Beamline X4A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.5
    Resolution(Low) 36.5
    Number Reflections(All) 20939
    Number Reflections(Observed) 20939
    Percent Possible(Observed) 98.7
    R Merge I(Observed) 0.042
    B(Isotropic) From Wilson Plot 20.8
    Redundancy 5.7
     
    High Resolution Shell Details
    Resolution(High) 1.5
    Resolution(Low) 1.55
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.276
    Mean I Over Sigma(Observed) 6.1
    Redundancy 5.4
    Number Unique Reflections(All) 2067
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.5
    Resolution(Low) 36.47
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 20939
    Number of Reflections(Observed) 20939
    Number of Reflections(R-Free) 2132
    Percent Reflections(Observed) 98.7
    R-Factor(All) 0.23794
    R-Factor(Observed) 0.23794
    R-Work 0.23298
    R-Free 0.28277
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 23.684
    Anisotropic B[1][1] -0.25
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.75
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5
    Shell Resolution(Low) 1.538
    Number of Reflections(Observed) 1505
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 1356
    R-Factor(R-Work) 0.265
    R-Factor(R-Free) 0.305
    Percent Reflections(Observed) 97.2
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.671
    r_scbond_it 2.584
    r_mcangle_it 1.469
    r_mcbond_it 0.91
    r_nbd_refined 0.215
    r_gen_planes_refined 0.005
    r_chiral_restr 0.07
    r_dihedral_angle_4_deg 17.869
    r_dihedral_angle_3_deg 15.373
    r_dihedral_angle_2_deg 32.029
    r_dihedral_angle_1_deg 3.832
    r_angle_refined_deg 1.29
    r_bond_refined_d 0.011
    r_nbtor_refined 0.296
    r_xyhbond_nbd_refined 0.14
    r_symmetry_vdw_refined 0.125
    r_symmetry_hbond_refined 0.134
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 980
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 117
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution SOLVE
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005