X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details 1.5 M Potassium Sodium Tartrate, 0.1M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.17 α = 90
b = 101.17 β = 90
c = 131.73 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-07-19
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
1.76 87.62 99.6 -- 0.093 -- 5.1 77414 77414 2.0 2.0 21.78
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.76 1.86 100.0 0.628 0.628 1.1 5.2 11228

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 1.76 33.116 -- 0.0 -- 77296 3911 99.5 -- 0.1887 0.1872 0.2158 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 1.76 1.7815 -- 132 2612 0.2698 0.2852 -- 100.0
X Ray Diffraction 1.7815 1.804 -- 151 2633 0.2575 0.3106 -- 100.0
X Ray Diffraction 1.804 1.8277 -- 146 2587 0.254 0.2586 -- 100.0
X Ray Diffraction 1.8277 1.8528 -- 149 2551 0.28 0.2931 -- 100.0
X Ray Diffraction 1.8528 1.8792 -- 150 2601 0.2797 0.2855 -- 100.0
X Ray Diffraction 1.8792 1.9073 -- 138 2652 0.258 0.2652 -- 100.0
X Ray Diffraction 1.9073 1.9371 -- 134 2559 0.2986 0.3118 -- 99.0
X Ray Diffraction 1.9371 1.9689 -- 149 2583 0.2344 0.251 -- 100.0
X Ray Diffraction 1.9689 2.0028 -- 129 2622 0.2082 0.2427 -- 100.0
X Ray Diffraction 2.0028 2.0392 -- 123 2619 0.2015 0.2586 -- 100.0
X Ray Diffraction 2.0392 2.0784 -- 142 2586 0.2323 0.3044 -- 99.0
X Ray Diffraction 2.0784 2.1208 -- 145 2627 0.2499 0.3245 -- 100.0
X Ray Diffraction 2.1208 2.167 -- 145 2584 0.2848 0.352 -- 99.0
X Ray Diffraction 2.167 2.2173 -- 122 2633 0.1965 0.2389 -- 100.0
X Ray Diffraction 2.2173 2.2728 -- 138 2619 0.2099 0.2532 -- 100.0
X Ray Diffraction 2.2728 2.3342 -- 126 2630 0.1881 0.205 -- 100.0
X Ray Diffraction 2.3342 2.4029 -- 134 2630 0.1872 0.226 -- 100.0
X Ray Diffraction 2.4029 2.4804 -- 149 2624 0.1836 0.2086 -- 100.0
X Ray Diffraction 2.4804 2.569 -- 134 2630 0.1846 0.2141 -- 100.0
X Ray Diffraction 2.569 2.6719 -- 126 2634 0.1853 0.2142 -- 100.0
X Ray Diffraction 2.6719 2.7934 -- 154 2634 0.1849 0.2297 -- 100.0
X Ray Diffraction 2.7934 2.9406 -- 137 2640 0.1821 0.2061 -- 100.0
X Ray Diffraction 2.9406 3.1247 -- 143 2628 0.1658 0.2068 -- 100.0
X Ray Diffraction 3.1247 3.3657 -- 141 2655 0.1626 0.1727 -- 100.0
X Ray Diffraction 3.3657 3.7041 -- 164 2622 0.1467 0.1752 -- 100.0
X Ray Diffraction 3.7041 4.2391 -- 151 2635 0.1343 0.1567 -- 98.0
X Ray Diffraction 4.2391 5.3372 -- 121 2737 0.1431 0.1545 -- 100.0
X Ray Diffraction 5.3372 33.1215 -- 138 2618 0.1921 0.2042 -- 93.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.7104
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.899
f_chiral_restr 0.061
f_plane_restr 0.004
f_dihedral_angle_d 12.721
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5576
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 551

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.16
PHENIX refinement version: 1.8.1_1168
PDB_EXTRACT data extraction version: 3.11
CBASS data collection
iMOSFLM data reduction
PHENIX phasing