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X-RAY DIFFRACTION
Materials and Methods page
2NY2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 298.0
    Details 7.2% PEG 8000, 7.8% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 71.61 α = 90
    b = 88.02 β = 90
    c = 196.02 γ = 90
     
    Space Group
    Space Group Name:    P 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2005-03-03
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength 1.0000
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2
    Resolution(Low) 50
    Number Reflections(All) 84379
    Number Reflections(Observed) 83788
    Percent Possible(Observed) 99.3
    R Merge I(Observed) 0.082
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.07
    Percent Possible(All) 94.4
    R Merge I(Observed) 0.374
    Redundancy 3.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 42.84
    Number of Reflections(all) 84461
    Number of Reflections(Observed) 75855
    Number of Reflections(R-Free) 4062
    Percent Reflections(Observed) 94.62
    R-Factor(Observed) 0.19526
    R-Work 0.19379
    R-Free 0.22296
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 40.166
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.06
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.06
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.052
    Number of Reflections(R-Free) 258
    Number of Reflections(R-Work) 4748
    R-Factor(R-Work) 0.229
    R-Factor(R-Free) 0.261
    Percent Reflections(Observed) 81.28
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 0.969
    r_scbond_it 0.597
    r_mcangle_it 1.232
    r_mcbond_it 0.715
    r_nbd_refined 0.202
    r_gen_planes_refined 0.003
    r_chiral_restr 0.059
    r_dihedral_angle_4_deg 14.81
    r_dihedral_angle_3_deg 12.812
    r_dihedral_angle_2_deg 33.529
    r_dihedral_angle_1_deg 5.068
    r_angle_refined_deg 0.911
    r_bond_refined_d 0.005
    r_nbtor_refined 0.319
    r_xyhbond_nbd_refined 0.199
    r_symmetry_vdw_refined 0.144
    r_symmetry_hbond_refined 0.318
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7084
    Nucleic Acid Atoms 0
    Heterogen Atoms 193
    Solvent Atoms 665
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution CNS
    Structure Refinement REFMAC 5.2.0005
     
    Software
    data extraction pdb_extract version: 2.000
    refinement REFMAC5 version: 5.2.0005
    data processing HKL