POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2CMY
  •   Crystallization Hide
    Crystallization Experiments
    pH 8
    Details CRYSTALS OF TRYPSIN WERE GROWN IN 2.5M AMMONIUM SULPHATE, 6MM CALCIUM CHLORIDE, 0.1M TRIS PH 8.15, 60MM BENZAMIDINE. THEY WERE BACKSOAKED IN 0.1M NA PHOSPHATE PH 5.8, 2.5M AMMONIUM SULPHATE TO REMOVE BENZAMIDINE. CRYSTALS WERE MOVED TO 2.5M AMMONIUM SULPHATE, 1MM CALCIUM CHLORDIE, 0.1M TRIS PH 8 AND PEPTIDE INHIBITOR ADDED AT 10MM AND INCUBATED FOR 16 HOURS.
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 60.66 α = 90
    b = 63.93 β = 90
    c = 71.7 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD (QUANTUM 4)
    Type ADSC
    Details MIRROR
    Collection Date 2003-10-05
     
    Diffraction Radiation
    Monochromator SI (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SRS BEAMLINE PX14.1
    Wavelength 1.488
    Site SRS
    Beamline PX14.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.4
    Resolution(High) 2.25
    Resolution(Low) 47.73
    Number Reflections(Observed) 13342
    Percent Possible(Observed) 97.5
    R Merge I(Observed) 0.12
    Redundancy 4.2
     
    High Resolution Shell Details
    Resolution(High) 2.25
    Resolution(Low) 2.33
    Percent Possible(All) 84.9
    R Merge I(Observed) 0.59
    Mean I Over Sigma(Observed) 1.4
    Redundancy 3.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.25
    Resolution(Low) 47.73
    Number of Reflections(Observed) 12681
    Number of Reflections(R-Free) 661
    Percent Reflections(Observed) 96.9
    R-Factor(Observed) 0.196
    R-Work 0.194
    R-Free 0.253
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 73.66
    Anisotropic B[1][1] 3.66
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -2.78
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.88
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.25
    Shell Resolution(Low) 2.31
    Number of Reflections(R-Free) 32
    Number of Reflections(R-Work) 716
    R-Factor(R-Work) 0.281
    R-Factor(R-Free) 0.352
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.316
    r_scbond_it 2.481
    r_mcangle_it 1.555
    r_mcbond_it 0.93
    r_nbd_refined 0.239
    r_gen_planes_refined 0.007
    r_chiral_restr 0.13
    r_dihedral_angle_4_deg 21.147
    r_dihedral_angle_3_deg 15.568
    r_dihedral_angle_2_deg 41.14
    r_dihedral_angle_1_deg 7.853
    r_angle_refined_deg 1.887
    r_bond_refined_d 0.022
    r_nbtor_refined 0.301
    r_xyhbond_nbd_refined 0.18
    r_symmetry_vdw_refined 0.179
    r_symmetry_hbond_refined 0.276
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1798
    Nucleic Acid Atoms 0
    Heterogen Atoms 17
    Solvent Atoms 110
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building AMORE