X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 12-18% PEG 4000, 0.1 M HEPES, PH 7.5, AT 22 DEGREES C

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.55 α = 90
b = 103.55 β = 90
c = 141.21 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 315R) ADSC MIRRORS 2009-06-29
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- 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 50 99.7 0.07 -- -- 5.6 -- 37791 -- -3.0 43.65
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 2.44 98.5 0.75 -- 2.36 5.6 --

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 2.306 41.753 -- 1.39 -- 36767 3723 99.41 -- 0.2026 0.2005 0.242 --
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 2.3055 2.3347 -- 124 2347 0.3089 0.3398 -- 90.0
X Ray Diffraction 2.3347 2.3654 -- 138 2594 0.2941 0.3558 -- 100.0
X Ray Diffraction 2.3654 2.3978 -- 137 2634 0.2879 0.2983 -- 100.0
X Ray Diffraction 2.3978 2.4321 -- 136 2603 0.2759 0.3372 -- 100.0
X Ray Diffraction 2.4321 2.4684 -- 139 2657 0.2646 0.3339 -- 100.0
X Ray Diffraction 2.4684 2.5069 -- 137 2596 0.2514 0.2948 -- 100.0
X Ray Diffraction 2.5069 2.548 -- 137 2591 0.2484 0.2903 -- 100.0
X Ray Diffraction 2.548 2.5919 -- 140 2674 0.2382 0.2562 -- 100.0
X Ray Diffraction 2.5919 2.6391 -- 136 2586 0.2399 0.2773 -- 100.0
X Ray Diffraction 2.6391 2.6898 -- 140 2630 0.2561 0.2878 -- 100.0
X Ray Diffraction 2.6898 2.7447 -- 138 2582 0.2408 0.3225 -- 100.0
X Ray Diffraction 2.7447 2.8044 -- 140 2655 0.2384 0.2578 -- 100.0
X Ray Diffraction 2.8044 2.8696 -- 138 2618 0.2282 0.3192 -- 100.0
X Ray Diffraction 2.8696 2.9414 -- 140 2612 0.2249 0.2638 -- 100.0
X Ray Diffraction 2.9414 3.0209 -- 139 2658 0.2113 0.2077 -- 100.0
X Ray Diffraction 3.0209 3.1097 -- 137 2592 0.2151 0.2769 -- 100.0
X Ray Diffraction 3.1097 3.2101 -- 141 2662 0.2145 0.2664 -- 100.0
X Ray Diffraction 3.2101 3.3247 -- 136 2596 0.2078 0.2922 -- 100.0
X Ray Diffraction 3.3247 3.4578 -- 140 2644 0.2181 0.2219 -- 100.0
X Ray Diffraction 3.4578 3.6151 -- 139 2609 0.1913 0.2403 -- 100.0
X Ray Diffraction 3.6151 3.8056 -- 140 2687 0.1901 0.1955 -- 100.0
X Ray Diffraction 3.8056 4.0438 -- 134 2549 0.177 0.2567 -- 100.0
X Ray Diffraction 4.0438 4.3557 -- 141 2646 0.1724 0.2017 -- 100.0
X Ray Diffraction 4.3557 4.7935 -- 136 2624 0.157 0.2122 -- 100.0
X Ray Diffraction 4.7935 5.4858 -- 141 2642 0.1632 0.2274 -- 100.0
X Ray Diffraction 5.4858 6.9065 -- 141 2624 0.1773 0.2054 -- 100.0
X Ray Diffraction 6.9065 41.7602 -- 138 2575 0.1525 0.1739 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.18
Anisotropic B[1][1] 5.7952
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.7952
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.5904
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.067
f_dihedral_angle_d 18.57
f_angle_d 0.96
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5507
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 193

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHASER model building