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X-RAY DIFFRACTION
Materials and Methods page
2QA6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 298.0
    Details pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 56.01 α = 90
    b = 82.94 β = 109.25
    c = 58.58 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Details Flat mirror (vertical focusing)
     
    Diffraction Radiation
    Monochromator single crystal Si(111) bent monochromator (horizontal focusing)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.97946
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.6
    Resolution(Low) 20
    Number Reflections(All) 14355
    Number Reflections(Observed) 14355
    Percent Possible(Observed) 92.5
    R Merge I(Observed) 0.105
    B(Isotropic) From Wilson Plot 67.702
    Redundancy 6.2
     
    High Resolution Shell Details
    Resolution(High) 2.6
    Resolution(Low) 2.69
    Percent Possible(All) 67.5
    R Merge I(Observed) 0.535
    Mean I Over Sigma(Observed) 2.35
    R-Sym I(Observed) 0.535
    Redundancy 3.1
    Number Unique Reflections(All) 1044
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.6
    Resolution(Low) 15.0
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 14267
    Number of Reflections(Observed) 14267
    Number of Reflections(R-Free) 694
    Percent Reflections(Observed) 91.71
    R-Factor(Observed) 0.198
    R-Work 0.195
    R-Free 0.249
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic
    Mean Isotropic B Value 34.666
    Anisotropic B[1][1] -3.48
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.16
    Anisotropic B[2][2] 7.08
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -3.49
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6
    Shell Resolution(Low) 2.666
    Number of Reflections(Observed) 704
    Number of Reflections(R-Free) 43
    Number of Reflections(R-Work) 661
    R-Factor(R-Work) 0.299
    R-Factor(R-Free) 0.386
    Percent Reflections(Observed) 61.81
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.843
    r_scbond_it 1.833
    r_mcangle_it 1.261
    r_mcbond_other 0.136
    r_mcbond_it 0.789
    r_symmetry_hbond_refined 0.105
    r_symmetry_vdw_other 0.288
    r_symmetry_vdw_refined 0.227
    r_xyhbond_nbd_refined 0.17
    r_nbtor_other 0.096
    r_nbtor_refined 0.189
    r_nbd_other 0.201
    r_bond_refined_d 0.016
    r_bond_other_d 0.001
    r_angle_refined_deg 1.559
    r_angle_other_deg 0.971
    r_dihedral_angle_1_deg 6.399
    r_dihedral_angle_2_deg 39.17
    r_dihedral_angle_3_deg 18.596
    r_dihedral_angle_4_deg 23.125
    r_chiral_restr 0.079
    r_gen_planes_refined 0.005
    r_gen_planes_other 0.001
    r_nbd_refined 0.233
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3985
    Nucleic Acid Atoms 0
    Heterogen Atoms 36
    Solvent Atoms 41
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution Phaser
    Structure Refinement REFMAC 5.2.0019
     
    Software
    data extraction pdb_extract version: 2.000
    refinement REFMAC5 version: 5.2.0019
    data processing HKL