X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 293.0
Details 0.1 M Tris HCl pH 7.4, 10 mM CaCl2, 0.5 mM Beta-octyl glucoside and 4 M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.43 α = 90
b = 70.43 β = 90
c = 47.3 γ = 90
Symmetry
Space Group P 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2006-10-29
Diffraction Radiation
Monochromator Protocol
Bent Ge(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 0.90020 APS 14-BM-C

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.1 40 99.9 -- -- -- -- 93921 93827 0.0 3.5 10.68

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.1 34.3125 -- 0.0 91537 91537 4594 97.38 -- 0.165 0.1639 0.1861 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.1 1.1121 -- 169 2649 0.2678 0.2963 -- 91.0
X Ray Diffraction 1.1121 1.1252 -- 160 2771 0.25 0.2664 -- 93.0
X Ray Diffraction 1.1252 1.1389 -- 155 2756 0.2308 0.2567 -- 94.0
X Ray Diffraction 1.1389 1.1533 -- 149 2848 0.2093 0.2424 -- 96.0
X Ray Diffraction 1.1533 1.1685 -- 161 2811 0.2028 0.2213 -- 96.0
X Ray Diffraction 1.1685 1.1845 -- 146 2864 0.1885 0.2264 -- 95.0
X Ray Diffraction 1.1845 1.2014 -- 141 2826 0.1848 0.2318 -- 96.0
X Ray Diffraction 1.2014 1.2193 -- 146 2851 0.1687 0.216 -- 96.0
X Ray Diffraction 1.2193 1.2384 -- 152 2897 0.1598 0.1861 -- 96.0
X Ray Diffraction 1.2384 1.2587 -- 130 2873 0.1408 0.1747 -- 97.0
X Ray Diffraction 1.2587 1.2804 -- 149 2876 0.1325 0.1543 -- 97.0
X Ray Diffraction 1.2804 1.3037 -- 152 2888 0.1205 0.148 -- 97.0
X Ray Diffraction 1.3037 1.3288 -- 140 2902 0.1158 0.1638 -- 97.0
X Ray Diffraction 1.3288 1.3559 -- 148 2906 0.116 0.1569 -- 98.0
X Ray Diffraction 1.3559 1.3854 -- 164 2892 0.1067 0.1559 -- 98.0
X Ray Diffraction 1.3854 1.4176 -- 156 2906 0.1031 0.1294 -- 98.0
X Ray Diffraction 1.4176 1.453 -- 165 2895 0.0947 0.1195 -- 99.0
X Ray Diffraction 1.453 1.4923 -- 141 2996 0.0923 0.1339 -- 98.0
X Ray Diffraction 1.4923 1.5362 -- 158 2911 0.0993 0.1347 -- 99.0
X Ray Diffraction 1.5362 1.5858 -- 160 2919 0.1033 0.1452 -- 99.0
X Ray Diffraction 1.5858 1.6425 -- 161 2968 0.1136 0.1503 -- 99.0
X Ray Diffraction 1.6425 1.7083 -- 133 2966 0.1347 0.1592 -- 99.0
X Ray Diffraction 1.7083 1.786 -- 177 2923 0.1531 0.192 -- 99.0
X Ray Diffraction 1.786 1.8802 -- 155 2948 0.1655 0.1876 -- 99.0
X Ray Diffraction 1.8802 1.9979 -- 152 2959 0.1602 0.1889 -- 99.0
X Ray Diffraction 1.9979 2.1522 -- 142 2954 0.1672 0.1725 -- 98.0
X Ray Diffraction 2.1522 2.3687 -- 144 2998 0.1867 0.1911 -- 99.0
X Ray Diffraction 2.3687 2.7114 -- 169 2968 0.1989 0.2181 -- 100.0
X Ray Diffraction 2.7114 3.4155 -- 165 2992 0.1769 0.1908 -- 99.0
X Ray Diffraction 3.4155 34.3125 -- 154 3030 0.1834 0.1919 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.6278
Anisotropic B[1][1] -1.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.4
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.333
f_bond_d 0.01
f_chiral_restr 0.081
f_plane_restr 0.006
f_dihedral_angle_d 12.356
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1952
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 409

Software

Software
Software Name Purpose
PHENIX refinement version: 1.7_650
PDB_EXTRACT data extraction version: 3.10
ADSC data collection version: Quantum
MOSFLM data reduction
SCALA data scaling
PHASER phasing