POP-OUT | CLOSE

An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1W98
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.5
    Details PCDK2/CYCLIN E (6-8 MG/ML), 1 MM AMPPNP, 10-15% PEG3350, 0.2 M SODIUM CITRATE PH7.5, pH 7.50
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 99.62 α = 90
    b = 99.62 β = 90
    c = 149.99 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC
    Collection Date 2004-08-01
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength 1.0091
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.5
    Resolution(High) 2.13
    Resolution(Low) 34.28
    Number Reflections(Observed) 39329
    Percent Possible(Observed) 94.2
    R Merge I(Observed) 0.08
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 2.13
    Resolution(Low) 2.21
    Percent Possible(All) 53.8
    R Merge I(Observed) 0.48
    Mean I Over Sigma(Observed) 1.9
    Redundancy 3.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.15
    Resolution(Low) 83.05
    Number of Reflections(Observed) 37310
    Number of Reflections(R-Free) 1984
    Percent Reflections(Observed) 94.2
    R-Factor(Observed) 0.185
    R-Work 0.181
    R-Free 0.246
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 45.24
    Anisotropic B[1][1] 0.72
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.72
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.44
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.15
    Shell Resolution(Low) 2.21
    Number of Reflections(R-Free) 80
    Number of Reflections(R-Work) 1221
    R-Factor(R-Work) 0.216
    R-Factor(R-Free) 0.339
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.258
    r_scbond_it 2.232
    r_mcangle_it 1.411
    r_mcbond_it 0.874
    r_nbd_refined 0.239
    r_gen_planes_refined 0.007
    r_chiral_restr 0.122
    r_dihedral_angle_4_deg 18.457
    r_dihedral_angle_3_deg 18.051
    r_dihedral_angle_2_deg 39.556
    r_dihedral_angle_1_deg 6.585
    r_angle_refined_deg 1.69
    r_bond_refined_d 0.018
    r_nbtor_refined 0.314
    r_xyhbond_nbd_refined 0.22
    r_symmetry_vdw_refined 0.282
    r_symmetry_hbond_refined 0.247
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4617
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 547
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) CCP4 (SCALA)
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.2.0003
     
    Software
    refinement REFMAC version: 5.2.0003
    model building MOLREP