X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.2
Details RT COMPLEX WAS MIXED WITH RESERVOIR SOLUTION CONTAINING 0.1M SODIUM CITRATE (PH5.2), 0.1M CACL2, 7.5% PEG400 (V/V). VAPOR DIFFUSION 4C.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 164.6 α = 90
b = 164.6 β = 90
c = 129.03 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (MX-300) MARRESEARCH MIRRORS VERTICAL FOCUSING 2010-07-10
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL - LIQUID NITROGEN COOLED SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID -- APS 22-ID

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
3.3 30 98.2 -- 0.07 -- 4.2 -- 30196 -- 2.0 100.08
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)
3.3 3.39 99.9 -- 0.72 2.3 4.2 --

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 3.3 29.733 -- 1.34 -- 30184 1515 98.36 -- 0.2758 0.2748 0.2954 --
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 3.3 3.4064 -- 130 2621 0.3849 0.4035 -- 100.0
X Ray Diffraction 3.4064 3.5279 -- 159 2582 0.355 0.4074 -- 100.0
X Ray Diffraction 3.5279 3.669 -- 136 2633 0.3454 0.3855 -- 100.0
X Ray Diffraction 3.669 3.8356 -- 146 2587 0.3254 0.3599 -- 99.0
X Ray Diffraction 3.8356 4.0374 -- 124 2624 0.3175 0.2979 -- 99.0
X Ray Diffraction 4.0374 4.2896 -- 126 2621 0.3003 0.2775 -- 99.0
X Ray Diffraction 4.2896 4.6197 -- 149 2577 0.2735 0.3359 -- 99.0
X Ray Diffraction 4.6197 5.0825 -- 142 2591 0.2637 0.3116 -- 98.0
X Ray Diffraction 5.0825 5.8132 -- 142 2597 0.2664 0.286 -- 97.0
X Ray Diffraction 5.8132 7.306 -- 130 2598 0.2695 0.3057 -- 97.0
X Ray Diffraction 7.306 29.7343 -- 131 2638 0.2073 0.2006 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 80.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.06
f_dihedral_angle_d 13.894
f_angle_d 0.875
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7543
Nucleic Acid Atoms 947
Heterogen Atoms 23
Solvent Atoms 0

Software

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