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X-RAY DIFFRACTION
Materials and Methods page
2HN2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 295.0
    Details 20% PEG 400, 0.2 M CaCl2, 0.1 M HEPES pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 214.25 α = 90
    b = 86.3 β = 112.23
    c = 181.53 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2005-06-19
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X8C
    Wavelength List 0.9799
    Site NSLS
    Beamline X8C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 3.7
    Resolution(Low) 100
    Number Reflections(All) 31076
    Number Reflections(Observed) 30297
    Percent Possible(Observed) 91.6
    R Merge I(Observed) 0.058
     
    High Resolution Shell Details
    Resolution(High) 3.7
    Resolution(Low) 3.83
    Percent Possible(All) 80.0
    R Merge I(Observed) 0.461
    Number Unique Reflections(All) 2694
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.7
    Resolution(Low) 20.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 30297
    Number of Reflections(Observed) 30297
    Number of Reflections(R-Free) 1488
    Percent Reflections(Observed) 92.0
    R-Factor(All) 0.2951
    R-Factor(Observed) 0.2951
    R-Work 0.295
    R-Free 0.316
    R-Free Selection Details 5% total
     
    Temperature Factor Modeling
    Mean Isotropic B Value 137.131
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7
    Shell Resolution(Low) 3.74
    Number of Reflections(Observed) 919
    Number of Reflections(R-Free) 44
    Number of Reflections(R-Work) 875
    R-Factor(R-Work) 0.437
    R-Factor(R-Free) 0.478
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.74
    Shell Resolution(Low) 3.79
    Number of Reflections(Observed) 906
    Number of Reflections(R-Free) 55
    Number of Reflections(R-Work) 851
    R-Factor(R-Work) 0.402
    R-Factor(R-Free) 0.436
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.79
    Shell Resolution(Low) 3.84
    Number of Reflections(Observed) 896
    Number of Reflections(R-Free) 41
    Number of Reflections(R-Work) 855
    R-Factor(R-Work) 0.388
    R-Factor(R-Free) 0.388
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.84
    Shell Resolution(Low) 3.89
    Number of Reflections(Observed) 908
    Number of Reflections(R-Free) 57
    Number of Reflections(R-Work) 851
    R-Factor(R-Work) 0.37
    R-Factor(R-Free) 0.359
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.89
    Shell Resolution(Low) 3.94
    Number of Reflections(Observed) 940
    Number of Reflections(R-Free) 49
    Number of Reflections(R-Work) 891
    R-Factor(R-Work) 0.38
    R-Factor(R-Free) 0.368
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.94
    Shell Resolution(Low) 4.0
    Number of Reflections(Observed) 928
    Number of Reflections(R-Free) 38
    Number of Reflections(R-Work) 890
    R-Factor(R-Work) 0.387
    R-Factor(R-Free) 0.325
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0
    Shell Resolution(Low) 4.05
    Number of Reflections(Observed) 945
    Number of Reflections(R-Free) 37
    Number of Reflections(R-Work) 908
    R-Factor(R-Work) 0.371
    R-Factor(R-Free) 0.387
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.05
    Shell Resolution(Low) 4.12
    Number of Reflections(Observed) 966
    Number of Reflections(R-Free) 47
    Number of Reflections(R-Work) 919
    R-Factor(R-Work) 0.359
    R-Factor(R-Free) 0.337
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.12
    Shell Resolution(Low) 4.18
    Number of Reflections(Observed) 936
    Number of Reflections(R-Free) 44
    Number of Reflections(R-Work) 892
    R-Factor(R-Work) 0.338
    R-Factor(R-Free) 0.359
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.18
    Shell Resolution(Low) 4.26
    Number of Reflections(Observed) 966
    Number of Reflections(R-Free) 44
    Number of Reflections(R-Work) 922
    R-Factor(R-Work) 0.333
    R-Factor(R-Free) 0.328
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.26
    Shell Resolution(Low) 4.33
    Number of Reflections(Observed) 1031
    Number of Reflections(R-Free) 55
    Number of Reflections(R-Work) 976
    R-Factor(R-Work) 0.326
    R-Factor(R-Free) 0.37
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.33
    Shell Resolution(Low) 4.41
    Number of Reflections(Observed) 995
    Number of Reflections(R-Free) 55
    Number of Reflections(R-Work) 940
    R-Factor(R-Work) 0.33
    R-Factor(R-Free) 0.326
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.41
    Shell Resolution(Low) 4.5
    Number of Reflections(Observed) 1016
    Number of Reflections(R-Free) 47
    Number of Reflections(R-Work) 969
    R-Factor(R-Work) 0.317
    R-Factor(R-Free) 0.361
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.5
    Shell Resolution(Low) 4.6
    Number of Reflections(Observed) 1066
    Number of Reflections(R-Free) 50
    Number of Reflections(R-Work) 1016
    R-Factor(R-Work) 0.335
    R-Factor(R-Free) 0.377
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.6
    Shell Resolution(Low) 4.71
    Number of Reflections(Observed) 1043
    Number of Reflections(R-Free) 44
    Number of Reflections(R-Work) 999
    R-Factor(R-Work) 0.307
    R-Factor(R-Free) 0.276
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.71
    Shell Resolution(Low) 4.82
    Number of Reflections(Observed) 1128
    Number of Reflections(R-Free) 59
    Number of Reflections(R-Work) 1069
    R-Factor(R-Work) 0.283
    R-Factor(R-Free) 0.26
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.82
    Shell Resolution(Low) 4.95
    Number of Reflections(Observed) 1054
    Number of Reflections(R-Free) 62
    Number of Reflections(R-Work) 992
    R-Factor(R-Work) 0.283
    R-Factor(R-Free) 0.367
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.95
    Shell Resolution(Low) 5.09
    Number of Reflections(Observed) 1140
    Number of Reflections(R-Free) 57
    Number of Reflections(R-Work) 1083
    R-Factor(R-Work) 0.306
    R-Factor(R-Free) 0.361
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.09
    Shell Resolution(Low) 5.26
    Number of Reflections(Observed) 1096
    Number of Reflections(R-Free) 55
    Number of Reflections(R-Work) 1041
    R-Factor(R-Work) 0.308
    R-Factor(R-Free) 0.322
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.26
    Shell Resolution(Low) 5.44
    Number of Reflections(Observed) 1109
    Number of Reflections(R-Free) 50
    Number of Reflections(R-Work) 1059
    R-Factor(R-Work) 0.273
    R-Factor(R-Free) 0.39
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.44
    Shell Resolution(Low) 5.65
    Number of Reflections(Observed) 1124
    Number of Reflections(R-Free) 52
    Number of Reflections(R-Work) 1072
    R-Factor(R-Work) 0.306
    R-Factor(R-Free) 0.301
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.65
    Shell Resolution(Low) 5.9
    Number of Reflections(Observed) 1122
    Number of Reflections(R-Free) 52
    Number of Reflections(R-Work) 1070
    R-Factor(R-Work) 0.306
    R-Factor(R-Free) 0.295
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.9
    Shell Resolution(Low) 6.21
    Number of Reflections(Observed) 1158
    Number of Reflections(R-Free) 58
    Number of Reflections(R-Work) 1100
    R-Factor(R-Work) 0.319
    R-Factor(R-Free) 0.39
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.21
    Shell Resolution(Low) 6.58
    Number of Reflections(Observed) 1131
    Number of Reflections(R-Free) 58
    Number of Reflections(R-Work) 1073
    R-Factor(R-Work) 0.316
    R-Factor(R-Free) 0.379
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.58
    Shell Resolution(Low) 7.07
    Number of Reflections(Observed) 1153
    Number of Reflections(R-Free) 58
    Number of Reflections(R-Work) 1095
    R-Factor(R-Work) 0.28
    R-Factor(R-Free) 0.386
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.07
    Shell Resolution(Low) 7.74
    Number of Reflections(Observed) 1155
    Number of Reflections(R-Free) 45
    Number of Reflections(R-Work) 1110
    R-Factor(R-Work) 0.247
    R-Factor(R-Free) 0.292
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.74
    Shell Resolution(Low) 8.78
    Number of Reflections(Observed) 1134
    Number of Reflections(R-Free) 57
    Number of Reflections(R-Work) 1077
    R-Factor(R-Work) 0.217
    R-Factor(R-Free) 0.186
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.78
    Shell Resolution(Low) 10.77
    Number of Reflections(Observed) 1155
    Number of Reflections(R-Free) 59
    Number of Reflections(R-Work) 1096
    R-Factor(R-Work) 0.189
    R-Factor(R-Free) 0.214
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 10.77
    Shell Resolution(Low) 20.0
    Number of Reflections(Observed) 1177
    Number of Reflections(R-Free) 59
    Number of Reflections(R-Work) 1118
    R-Factor(R-Work) 0.295
    R-Factor(R-Free) 0.303
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_angle_deg 1.09
    c_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 13685
    Nucleic Acid Atoms 0
    Heterogen Atoms 13
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) HKL-2000
    Structure Solution CNS
    Structure Refinement CNS
     
    Software
    data extraction pdb_extract version: 2.000
    refinement CNS
    molecular replacement CNS
    data processing HKL