X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9.4
Temperature 291.0
Details 0.1M Bicine, 6% PEG8000, pH 9.4, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.38 α = 90
b = 127.14 β = 104.78
c = 74.57 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-03-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.9754 ESRF ID23-1

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
2.3 53.51 99.3 0.085 0.085 -- 6.0 58906 58906 -- -- 42.31
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)
2.3 2.42 99.1 0.512 0.512 3.0 6.0 8523

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 2.3 36.512 -- -- 58809 58809 2970 98.92 0.2068 0.2068 0.2052 0.236 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 2.3 2.3377 -- 131 2648 0.3153 0.3753 -- 98.0
X Ray Diffraction 2.3377 2.378 -- 122 2628 0.3049 0.3147 -- 99.0
X Ray Diffraction 2.378 2.4212 -- 126 2671 0.2764 0.3253 -- 99.0
X Ray Diffraction 2.4212 2.4678 -- 137 2654 0.269 0.3339 -- 99.0
X Ray Diffraction 2.4678 2.5182 -- 118 2645 0.2566 0.2887 -- 98.0
X Ray Diffraction 2.5182 2.5729 -- 155 2667 0.2434 0.2884 -- 99.0
X Ray Diffraction 2.5729 2.6327 -- 124 2622 0.2385 0.2703 -- 99.0
X Ray Diffraction 2.6327 2.6986 -- 152 2660 0.2265 0.2766 -- 99.0
X Ray Diffraction 2.6986 2.7715 -- 131 2665 0.2162 0.3019 -- 99.0
X Ray Diffraction 2.7715 2.853 -- 136 2683 0.2098 0.2643 -- 99.0
X Ray Diffraction 2.853 2.9451 -- 152 2667 0.2054 0.2512 -- 100.0
X Ray Diffraction 2.9451 3.0503 -- 133 2650 0.2158 0.2295 -- 99.0
X Ray Diffraction 3.0503 3.1723 -- 161 2646 0.2254 0.2824 -- 99.0
X Ray Diffraction 3.1723 3.3166 -- 148 2685 0.2149 0.2451 -- 100.0
X Ray Diffraction 3.3166 3.4914 -- 149 2664 0.2145 0.2489 -- 100.0
X Ray Diffraction 3.4914 3.7099 -- 131 2701 0.2018 0.2331 -- 99.0
X Ray Diffraction 3.7099 3.996 -- 162 2660 0.1977 0.2369 -- 100.0
X Ray Diffraction 3.996 4.3975 -- 150 2681 0.1769 0.2037 -- 100.0
X Ray Diffraction 4.3975 5.0325 -- 170 2678 0.1603 0.173 -- 100.0
X Ray Diffraction 5.0325 6.335 -- 151 2691 0.1916 0.2183 -- 100.0
X Ray Diffraction 6.335 36.5168 -- 131 2573 0.1887 0.211 -- 93.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.037
f_dihedral_angle_d 12.14
f_angle_d 0.586
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6627
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 216

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: dev_1078) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_1078) refinement
PHASER model building
ADSC version: Quantum data collection