6CIL

PRE-REACTION COMPLEX, RAG1(E962Q)/2-INTACT/INTACT 12/23RSS COMPLEX IN MN2+


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.9
Temperature 277.0
Details 18% PEG3350, 200 mM KNO3, 50 mM HEPES pH 6.9

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 157.33 α = 90
b = 118.83 β = 100.59
c = 198.96 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX300-HS -- 2017-06-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.0000 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
4.15 50 99.7 0.091 -- -- 4.1 -- 27342 -- -- 190.4
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)
4.15 4.22 99.7 0.933 -- 1.5 4.1 --

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 4.15 37.98 -- 1.35 -- 27302 1396 99.44 -- 0.2073 0.2061 0.2306 Copy from intact/nicked structure
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 4.15 4.2981 -- 130 2532 0.2427 0.2739 0.0 98.0
X Ray Diffraction 4.2981 4.47 -- 155 2577 0.2252 0.2663 0.0 100.0
X Ray Diffraction 4.47 4.6731 -- 160 2565 0.2029 0.2577 0.0 100.0
X Ray Diffraction 4.6731 4.9189 -- 139 2594 0.202 0.2679 0.0 100.0
X Ray Diffraction 4.9189 5.2264 -- 134 2571 0.1825 0.224 0.0 100.0
X Ray Diffraction 5.2264 5.6288 -- 151 2581 0.2008 0.2494 0.0 100.0
X Ray Diffraction 5.6288 6.193 -- 133 2615 0.199 0.2465 0.0 100.0
X Ray Diffraction 6.193 7.0841 -- 131 2598 0.2028 0.2418 0.0 100.0
X Ray Diffraction 7.0841 8.9062 -- 130 2636 0.2074 0.2526 0.0 100.0
X Ray Diffraction 8.9062 37.9838 -- 133 2637 0.2076 0.1978 0.0 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 217.764
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14549
Nucleic Acid Atoms 3690
Heterogen Atoms 4
Solvent Atoms 0

Software

Software
Software Name Purpose
HKL-2000 data reduction
SCALA data scaling
PHENIX phasing
PHENIX refinement version: 1.13_2998
PDB_EXTRACT data extraction version: 3.24