X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.15
Details Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 304.8 α = 90
b = 288.2 β = 98.71
c = 437.68 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
PIXEL DECTRIS PILATUS 6M -- 2015-11-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 1.148 SOLEIL PROXIMA 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
3 100 100.0 0.204 -- -- 9.0 -- 1484770 -- -3.0 62.26
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)
3.0 3.1 99.6 1.124 -- 1.39 -- --

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 3.0 99.856 -- 1.35 -- 1484577 29477 99.95 -- 0.1944 0.1938 0.2267 --
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 3.0 3.0341 -- 934 47861 0.3202 0.3539 -- 99.0
X Ray Diffraction 3.0341 3.0698 -- 984 48374 0.3009 0.3452 -- 100.0
X Ray Diffraction 3.0698 3.1072 -- 964 48532 0.2893 0.3218 -- 100.0
X Ray Diffraction 3.1072 3.1466 -- 983 48357 0.2839 0.3082 -- 100.0
X Ray Diffraction 3.1466 3.188 -- 978 48346 0.2848 0.3252 -- 100.0
X Ray Diffraction 3.188 3.2316 -- 985 48457 0.2648 0.3124 -- 100.0
X Ray Diffraction 3.2316 3.2778 -- 958 48470 0.2376 0.2713 -- 100.0
X Ray Diffraction 3.2778 3.3267 -- 1004 48368 0.2312 0.2724 -- 100.0
X Ray Diffraction 3.3267 3.3787 -- 962 48444 0.218 0.2648 -- 100.0
X Ray Diffraction 3.3787 3.4341 -- 996 48456 0.2088 0.2412 -- 100.0
X Ray Diffraction 3.4341 3.4933 -- 974 48377 0.2054 0.2365 -- 100.0
X Ray Diffraction 3.4933 3.5569 -- 982 48481 0.1974 0.2377 -- 100.0
X Ray Diffraction 3.5569 3.6253 -- 962 48445 0.1956 0.2369 -- 100.0
X Ray Diffraction 3.6253 3.6993 -- 1040 48408 0.1955 0.2281 -- 100.0
X Ray Diffraction 3.6993 3.7797 -- 1003 48406 0.1881 0.2267 -- 100.0
X Ray Diffraction 3.7797 3.8677 -- 1028 48422 0.1763 0.209 -- 100.0
X Ray Diffraction 3.8677 3.9644 -- 967 48537 0.1724 0.2106 -- 100.0
X Ray Diffraction 3.9644 4.0716 -- 947 48544 0.1682 0.2055 -- 100.0
X Ray Diffraction 4.0716 4.1914 -- 1020 48429 0.1683 0.2094 -- 100.0
X Ray Diffraction 4.1914 4.3267 -- 947 48546 0.1661 0.2028 -- 100.0
X Ray Diffraction 4.3267 4.4813 -- 983 48542 0.1634 0.2012 -- 100.0
X Ray Diffraction 4.4813 4.6607 -- 938 48681 0.1607 0.1893 -- 100.0
X Ray Diffraction 4.6607 4.8728 -- 1018 48438 0.1589 0.1923 -- 100.0
X Ray Diffraction 4.8728 5.1297 -- 959 48601 0.1621 0.1948 -- 100.0
X Ray Diffraction 5.1297 5.4511 -- 1005 48599 0.161 0.1945 -- 100.0
X Ray Diffraction 5.4511 5.872 -- 980 48633 0.1635 0.193 -- 100.0
X Ray Diffraction 5.872 6.4628 -- 974 48650 0.1743 0.2071 -- 100.0
X Ray Diffraction 6.4628 7.3977 -- 1032 48704 0.1849 0.2168 -- 100.0
X Ray Diffraction 7.3977 9.3193 -- 967 48892 0.201 0.2351 -- 100.0
X Ray Diffraction 9.3193 99.9116 -- 1003 49100 0.2226 0.2247 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 74.4126
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.043
f_plane_restr 0.006
f_dihedral_angle_d 17.305
f_chiral_restr 0.044
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 178135
Nucleic Acid Atoms 222512
Heterogen Atoms 8974
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.20
XDS data reduction
PHASER phasing