POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3SZ7
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 4
    Temperature 298.0
    Details 25% PEG 1500, 0.1M MES, Malic acid, Tris, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.61 α = 90
    b = 86.77 β = 90
    c = 116.54 γ = 90
     
    Space Group
    Space Group Name:    F 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 173
     
    Diffraction Detector
    Detector PIXEL
    Type PSI PILATUS 6M
    Collection Date 2010-07-24
     
    Diffraction Radiation
    Monochromator Liquid nitrogen-cooled double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL12-2
    Wavelength List 1.000
    Site SSRL
    Beamline BL12-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.72
    Resolution(Low) 26.53
    Number Reflections(All) 15756
    Number Reflections(Observed) 15756
    Percent Possible(Observed) 97.2
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 1.72
    Resolution(Low) 1.81
    Percent Possible(All) 98.8
    R Merge I(Observed) 0.502
    Mean I Over Sigma(Observed) 1.2
    R-Sym I(Observed) 0.502
    Redundancy 4.1
    Number Unique Reflections(All) 2316
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.72
    Resolution(Low) 25.397
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 15169
    Number of Reflections(R-Free) 1524
    Percent Reflections(Observed) 93.32
    R-Factor(Observed) 0.173
    R-Work 0.169
    R-Free 0.2077
    R-Free Selection Details Random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 27.115
    Anisotropic B[1][1] 3.9518
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -3.2148
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.737
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.72
    Shell Resolution(Low) 1.7755
    Number of Reflections(R-Free) 131
    Number of Reflections(R-Work) 1142
    R-Factor(R-Work) 0.2546
    R-Factor(R-Free) 0.3106
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7755
    Shell Resolution(Low) 1.839
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 1179
    R-Factor(R-Work) 0.2185
    R-Factor(R-Free) 0.2303
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.839
    Shell Resolution(Low) 1.9126
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1201
    R-Factor(R-Work) 0.2102
    R-Factor(R-Free) 0.2769
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9126
    Shell Resolution(Low) 1.9996
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 1162
    R-Factor(R-Work) 0.1957
    R-Factor(R-Free) 0.2629
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9996
    Shell Resolution(Low) 2.105
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1232
    R-Factor(R-Work) 0.1684
    R-Factor(R-Free) 0.224
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.105
    Shell Resolution(Low) 2.2368
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 1274
    R-Factor(R-Work) 0.1478
    R-Factor(R-Free) 0.1994
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2368
    Shell Resolution(Low) 2.4093
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1309
    R-Factor(R-Work) 0.1539
    R-Factor(R-Free) 0.1976
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4093
    Shell Resolution(Low) 2.6516
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 1280
    R-Factor(R-Work) 0.1549
    R-Factor(R-Free) 0.1997
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6516
    Shell Resolution(Low) 3.0347
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 1228
    R-Factor(R-Work) 0.1543
    R-Factor(R-Free) 0.1815
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0347
    Shell Resolution(Low) 3.8213
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1311
    R-Factor(R-Work) 0.1535
    R-Factor(R-Free) 0.1813
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8213
    Shell Resolution(Low) 25.3993
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1327
    R-Factor(R-Work) 0.1774
    R-Factor(R-Free) 0.2118
    Percent Reflections(Observed) 94.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 11.168
    f_plane_restr 0.003
    f_chiral_restr 0.048
    f_angle_d 0.743
    f_bond_d 0.004
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1124
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 109
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data reduction SCALA version: 3.3.16