POP-OUT | CLOSE

An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3CQQ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 298.0
    Details 2.4 M sodium malonate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 40.04 α = 90
    b = 58.44 β = 90
    c = 104.54 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 RIGAKU RAXIS HTC
    Collection Date 2003-11-13
     
    Diffraction Radiation
    Monochromator Confocal optics
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU FR-D
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.9
    Resolution(Low) 50
    Number Reflections(All) 20086
    Number Reflections(Observed) 20086
    Percent Possible(Observed) 100.0
    Redundancy 6.8
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.97
    Percent Possible(All) 100.0
    Mean I Over Sigma(Observed) 5.1
    R-Sym I(Observed) 0.511
    Redundancy 7.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 33.02
    Number of Reflections(Observed) 18971
    Number of Reflections(R-Free) 1020
    Percent Reflections(Observed) 99.96
    R-Factor(Observed) 0.19486
    R-Work 0.19233
    R-Free 0.2401
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 31.124
    Anisotropic B[1][1] 0.01
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.02
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.01
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 1.949
    Number of Reflections(R-Free) 68
    Number of Reflections(R-Work) 1354
    R-Factor(R-Work) 0.233
    R-Factor(R-Free) 0.282
    Percent Reflections(Observed) 99.79
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.59
    r_scbond_it 2.254
    r_mcangle_it 1.357
    r_mcbond_it 0.923
    r_nbd_refined 0.201
    r_gen_planes_refined 0.006
    r_chiral_restr 0.095
    r_dihedral_angle_4_deg 18.205
    r_dihedral_angle_3_deg 13.188
    r_dihedral_angle_2_deg 39.774
    r_dihedral_angle_1_deg 6.436
    r_angle_refined_deg 1.392
    r_bond_refined_d 0.013
    r_nbtor_refined 0.301
    r_xyhbond_nbd_refined 0.165
    r_metal_ion_refined 0.119
    r_symmetry_vdw_refined 0.243
    r_symmetry_hbond_refined 0.113
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1913
    Nucleic Acid Atoms 0
    Heterogen Atoms 6
    Solvent Atoms 146
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019