POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4LDV
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.8
    Temperature 293.0
    Details 0.75 l of 4mg/mL ARF1DBD + 0.75 l crystallization buffer (2.9 M NaFormate, 0.1 M MES 6.0, 50 mM KI), pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 88.36 α = 90
    b = 126.26 β = 90
    c = 83.67 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2011-06-08
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength List 0.97625
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.45
    Resolution(Low) 39.08
    Number Reflections(Observed) 81768
    Percent Possible(Observed) 98.9
    R Merge I(Observed) 0.093
    B(Isotropic) From Wilson Plot 18.4
    Redundancy 3.2
     
    High Resolution Shell Details
    Resolution(High) 1.45
    Resolution(Low) 1.53
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.58
    Mean I Over Sigma(Observed) 1.4
    Redundancy 2.7
    Number Unique Reflections(All) 11957
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.45
    Resolution(Low) 39.08
    Number of Reflections(Observed) 77670
    Number of Reflections(R-Free) 4079
    Percent Reflections(Observed) 97.15
    R-Factor(Observed) 0.21101
    R-Work 0.2093
    R-Free 0.24344
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 18.723
    Anisotropic B[1][1] 0.25
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.61
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.36
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.448
    Shell Resolution(Low) 1.486
    Number of Reflections(R-Free) 279
    Number of Reflections(R-Work) 5486
    R-Factor(R-Work) 0.376
    R-Factor(R-Free) 0.411
    Percent Reflections(Observed) 94.73
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_long_range_B_refined 6.954
    r_scbond_it 1.716
    r_mcangle_it 2.394
    r_mcbond_it 1.413
    r_gen_planes_refined 0.009
    r_chiral_restr 0.11
    r_dihedral_angle_4_deg 17.244
    r_dihedral_angle_3_deg 13.354
    r_dihedral_angle_2_deg 38.299
    r_dihedral_angle_1_deg 6.054
    r_angle_refined_deg 1.565
    r_bond_refined_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2591
    Nucleic Acid Atoms 0
    Heterogen Atoms 23
    Solvent Atoms 298
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MXCube
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Refinement REFMAC 5.7.0032
     
    Software
    refinement REFMAC version: 5.7.0032
    data collection MXCube