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X-RAY DIFFRACTION
Materials and Methods page
2Q6N
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 291.0
    Details 5% MPD, 10-12% PEG 6000, and 0.1 M HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 140 α = 90
    b = 147.31 β = 90
    c = 238.49 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
    Type ADSC QUANTUM 315
    Collection Date 2006-07-03
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.98
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 3.2
    Resolution(Low) 147.44
    Number Reflections(Observed) 81299
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.11
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 3.2
    Resolution(Low) 3.28
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.831
    Mean I Over Sigma(Observed) 0.9
    R-Sym I(Observed) 0.831
    Redundancy 4.1
    Number Unique Reflections(All) 5966
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.2
    Resolution(Low) 30.0
    Cut-off Sigma(F) 277.0
    Number of Reflections(Observed) 80849
    Number of Reflections(R-Free) 4058
    Percent Reflections(Observed) 98.8
    R-Work 0.233
    R-Free 0.311
     
    Temperature Factor Modeling
    Mean Isotropic B Value 111.396
    Anisotropic B[1][1] -9.55
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.669
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 5.881
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2
    Shell Resolution(Low) 3.22
    Number of Reflections(Observed) 1572
    Number of Reflections(R-Free) 76
    Number of Reflections(R-Work) 1496
    R-Factor(R-Work) 0.349
    R-Factor(R-Free) 0.389
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.22
    Shell Resolution(Low) 3.24
    Number of Reflections(Observed) 1573
    Number of Reflections(R-Free) 98
    Number of Reflections(R-Work) 1475
    R-Factor(R-Work) 0.341
    R-Factor(R-Free) 0.364
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.24
    Shell Resolution(Low) 3.27
    Number of Reflections(Observed) 1616
    Number of Reflections(R-Free) 88
    Number of Reflections(R-Work) 1528
    R-Factor(R-Work) 0.353
    R-Factor(R-Free) 0.376
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.27
    Shell Resolution(Low) 3.29
    Number of Reflections(Observed) 1598
    Number of Reflections(R-Free) 87
    Number of Reflections(R-Work) 1511
    R-Factor(R-Work) 0.343
    R-Factor(R-Free) 0.385
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.29
    Shell Resolution(Low) 3.31
    Number of Reflections(Observed) 1561
    Number of Reflections(R-Free) 72
    Number of Reflections(R-Work) 1489
    R-Factor(R-Work) 0.339
    R-Factor(R-Free) 0.437
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.31
    Shell Resolution(Low) 3.34
    Number of Reflections(Observed) 1649
    Number of Reflections(R-Free) 77
    Number of Reflections(R-Work) 1572
    R-Factor(R-Work) 0.339
    R-Factor(R-Free) 0.354
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.34
    Shell Resolution(Low) 3.36
    Number of Reflections(Observed) 1585
    Number of Reflections(R-Free) 85
    Number of Reflections(R-Work) 1500
    R-Factor(R-Work) 0.32
    R-Factor(R-Free) 0.371
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.36
    Shell Resolution(Low) 3.39
    Number of Reflections(Observed) 1582
    Number of Reflections(R-Free) 73
    Number of Reflections(R-Work) 1509
    R-Factor(R-Work) 0.308
    R-Factor(R-Free) 0.357
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.39
    Shell Resolution(Low) 3.42
    Number of Reflections(Observed) 1620
    Number of Reflections(R-Free) 71
    Number of Reflections(R-Work) 1549
    R-Factor(R-Work) 0.33
    R-Factor(R-Free) 0.379
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.42
    Shell Resolution(Low) 3.45
    Number of Reflections(Observed) 1615
    Number of Reflections(R-Free) 80
    Number of Reflections(R-Work) 1535
    R-Factor(R-Work) 0.336
    R-Factor(R-Free) 0.444
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.45
    Shell Resolution(Low) 3.48
    Number of Reflections(Observed) 1591
    Number of Reflections(R-Free) 78
    Number of Reflections(R-Work) 1513
    R-Factor(R-Work) 0.316
    R-Factor(R-Free) 0.415
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.48
    Shell Resolution(Low) 3.51
    Number of Reflections(Observed) 1654
    Number of Reflections(R-Free) 92
    Number of Reflections(R-Work) 1562
    R-Factor(R-Work) 0.295
    R-Factor(R-Free) 0.35
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.51
    Shell Resolution(Low) 3.54
    Number of Reflections(Observed) 1575
    Number of Reflections(R-Free) 88
    Number of Reflections(R-Work) 1487
    R-Factor(R-Work) 0.285
    R-Factor(R-Free) 0.316
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.54
    Shell Resolution(Low) 3.57
    Number of Reflections(Observed) 1592
    Number of Reflections(R-Free) 79
    Number of Reflections(R-Work) 1513
    R-Factor(R-Work) 0.281
    R-Factor(R-Free) 0.327
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.57
    Shell Resolution(Low) 3.6
    Number of Reflections(Observed) 1645
    Number of Reflections(R-Free) 75
    Number of Reflections(R-Work) 1570
    R-Factor(R-Work) 0.287
    R-Factor(R-Free) 0.368
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6
    Shell Resolution(Low) 3.64
    Number of Reflections(Observed) 1615
    Number of Reflections(R-Free) 81
    Number of Reflections(R-Work) 1534
    R-Factor(R-Work) 0.282
    R-Factor(R-Free) 0.319
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.64
    Shell Resolution(Low) 3.67
    Number of Reflections(Observed) 1627
    Number of Reflections(R-Free) 95
    Number of Reflections(R-Work) 1532
    R-Factor(R-Work) 0.288
    R-Factor(R-Free) 0.377
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.67
    Shell Resolution(Low) 3.71
    Number of Reflections(Observed) 1583
    Number of Reflections(R-Free) 83
    Number of Reflections(R-Work) 1500
    R-Factor(R-Work) 0.275
    R-Factor(R-Free) 0.344
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.71
    Shell Resolution(Low) 3.75
    Number of Reflections(Observed) 1616
    Number of Reflections(R-Free) 74
    Number of Reflections(R-Work) 1542
    R-Factor(R-Work) 0.279
    R-Factor(R-Free) 0.346
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.75
    Shell Resolution(Low) 3.79
    Number of Reflections(Observed) 1641
    Number of Reflections(R-Free) 88
    Number of Reflections(R-Work) 1553
    R-Factor(R-Work) 0.286
    R-Factor(R-Free) 0.315
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.79
    Shell Resolution(Low) 3.84
    Number of Reflections(Observed) 1607
    Number of Reflections(R-Free) 61
    Number of Reflections(R-Work) 1546
    R-Factor(R-Work) 0.24
    R-Factor(R-Free) 0.348
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.84
    Shell Resolution(Low) 3.88
    Number of Reflections(Observed) 1616
    Number of Reflections(R-Free) 83
    Number of Reflections(R-Work) 1533
    R-Factor(R-Work) 0.264
    R-Factor(R-Free) 0.349
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.88
    Shell Resolution(Low) 3.93
    Number of Reflections(Observed) 1607
    Number of Reflections(R-Free) 91
    Number of Reflections(R-Work) 1516
    R-Factor(R-Work) 0.279
    R-Factor(R-Free) 0.354
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.93
    Shell Resolution(Low) 3.98
    Number of Reflections(Observed) 1629
    Number of Reflections(R-Free) 66
    Number of Reflections(R-Work) 1563
    R-Factor(R-Work) 0.256
    R-Factor(R-Free) 0.321
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.98
    Shell Resolution(Low) 4.03
    Number of Reflections(Observed) 1600
    Number of Reflections(R-Free) 90
    Number of Reflections(R-Work) 1510
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.347
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.03
    Shell Resolution(Low) 4.09
    Number of Reflections(Observed) 1625
    Number of Reflections(R-Free) 71
    Number of Reflections(R-Work) 1554
    R-Factor(R-Work) 0.259
    R-Factor(R-Free) 0.342
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.09
    Shell Resolution(Low) 4.14
    Number of Reflections(Observed) 1624
    Number of Reflections(R-Free) 78
    Number of Reflections(R-Work) 1546
    R-Factor(R-Work) 0.25
    R-Factor(R-Free) 0.315
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.14
    Shell Resolution(Low) 4.21
    Number of Reflections(Observed) 1621
    Number of Reflections(R-Free) 84
    Number of Reflections(R-Work) 1537
    R-Factor(R-Work) 0.222
    R-Factor(R-Free) 0.324
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.21
    Shell Resolution(Low) 4.27
    Number of Reflections(Observed) 1590
    Number of Reflections(R-Free) 89
    Number of Reflections(R-Work) 1501
    R-Factor(R-Work) 0.229
    R-Factor(R-Free) 0.323
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.27
    Shell Resolution(Low) 4.34
    Number of Reflections(Observed) 1639
    Number of Reflections(R-Free) 70
    Number of Reflections(R-Work) 1569
    R-Factor(R-Work) 0.202
    R-Factor(R-Free) 0.301
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.34
    Shell Resolution(Low) 4.42
    Number of Reflections(Observed) 1622
    Number of Reflections(R-Free) 67
    Number of Reflections(R-Work) 1555
    R-Factor(R-Work) 0.225
    R-Factor(R-Free) 0.325
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.42
    Shell Resolution(Low) 4.5
    Number of Reflections(Observed) 1618
    Number of Reflections(R-Free) 91
    Number of Reflections(R-Work) 1527
    R-Factor(R-Work) 0.214
    R-Factor(R-Free) 0.361
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.5
    Shell Resolution(Low) 4.58
    Number of Reflections(Observed) 1602
    Number of Reflections(R-Free) 84
    Number of Reflections(R-Work) 1518
    R-Factor(R-Work) 0.224
    R-Factor(R-Free) 0.357
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.58
    Shell Resolution(Low) 4.67
    Number of Reflections(Observed) 1628
    Number of Reflections(R-Free) 76
    Number of Reflections(R-Work) 1552
    R-Factor(R-Work) 0.21
    R-Factor(R-Free) 0.312
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.67
    Shell Resolution(Low) 4.78
    Number of Reflections(Observed) 1619
    Number of Reflections(R-Free) 89
    Number of Reflections(R-Work) 1530
    R-Factor(R-Work) 0.205
    R-Factor(R-Free) 0.276
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.78
    Shell Resolution(Low) 4.89
    Number of Reflections(Observed) 1604
    Number of Reflections(R-Free) 83
    Number of Reflections(R-Work) 1521
    R-Factor(R-Work) 0.219
    R-Factor(R-Free) 0.319
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.89
    Shell Resolution(Low) 5.01
    Number of Reflections(Observed) 1624
    Number of Reflections(R-Free) 72
    Number of Reflections(R-Work) 1552
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.255
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.01
    Shell Resolution(Low) 5.14
    Number of Reflections(Observed) 1616
    Number of Reflections(R-Free) 78
    Number of Reflections(R-Work) 1538
    R-Factor(R-Work) 0.189
    R-Factor(R-Free) 0.24
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.14
    Shell Resolution(Low) 5.29
    Number of Reflections(Observed) 1635
    Number of Reflections(R-Free) 88
    Number of Reflections(R-Work) 1547
    R-Factor(R-Work) 0.213
    R-Factor(R-Free) 0.333
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.29
    Shell Resolution(Low) 5.46
    Number of Reflections(Observed) 1621
    Number of Reflections(R-Free) 74
    Number of Reflections(R-Work) 1547
    R-Factor(R-Work) 0.194
    R-Factor(R-Free) 0.261
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.46
    Shell Resolution(Low) 5.66
    Number of Reflections(Observed) 1638
    Number of Reflections(R-Free) 91
    Number of Reflections(R-Work) 1547
    R-Factor(R-Work) 0.234
    R-Factor(R-Free) 0.348
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.66
    Shell Resolution(Low) 5.88
    Number of Reflections(Observed) 1607
    Number of Reflections(R-Free) 84
    Number of Reflections(R-Work) 1523
    R-Factor(R-Work) 0.24
    R-Factor(R-Free) 0.346
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.88
    Shell Resolution(Low) 6.15
    Number of Reflections(Observed) 1659
    Number of Reflections(R-Free) 76
    Number of Reflections(R-Work) 1583
    R-Factor(R-Work) 0.258
    R-Factor(R-Free) 0.369
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.15
    Shell Resolution(Low) 6.47
    Number of Reflections(Observed) 1607
    Number of Reflections(R-Free) 81
    Number of Reflections(R-Work) 1526
    R-Factor(R-Work) 0.239
    R-Factor(R-Free) 0.331
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.47
    Shell Resolution(Low) 6.87
    Number of Reflections(Observed) 1613
    Number of Reflections(R-Free) 86
    Number of Reflections(R-Work) 1527
    R-Factor(R-Work) 0.239
    R-Factor(R-Free) 0.357
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.87
    Shell Resolution(Low) 7.39
    Number of Reflections(Observed) 1634
    Number of Reflections(R-Free) 86
    Number of Reflections(R-Work) 1548
    R-Factor(R-Work) 0.189
    R-Factor(R-Free) 0.295
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.39
    Shell Resolution(Low) 8.12
    Number of Reflections(Observed) 1619
    Number of Reflections(R-Free) 77
    Number of Reflections(R-Work) 1542
    R-Factor(R-Work) 0.179
    R-Factor(R-Free) 0.28
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.12
    Shell Resolution(Low) 9.27
    Number of Reflections(Observed) 1635
    Number of Reflections(R-Free) 95
    Number of Reflections(R-Work) 1540
    R-Factor(R-Work) 0.15
    R-Factor(R-Free) 0.187
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 9.27
    Shell Resolution(Low) 11.56
    Number of Reflections(Observed) 1684
    Number of Reflections(R-Free) 82
    Number of Reflections(R-Work) 1602
    R-Factor(R-Work) 0.166
    R-Factor(R-Free) 0.258
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 11.56
    Shell Resolution(Low) 30.0
    Number of Reflections(Observed) 1696
    Number of Reflections(R-Free) 75
    Number of Reflections(R-Work) 1621
    R-Factor(R-Work) 0.253
    R-Factor(R-Free) 0.267
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_angle_deg 1.142
    c_bond_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 26138
    Nucleic Acid Atoms 0
    Heterogen Atoms 385
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement CNS
     
    Software
    data extraction pdb_extract version: 2.000
    refinement CNS
    molecular replacement Phaser
    data processing SCALA