X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 287.0
Details 10-14% PEG 8000, 100-200 mM Glycine, 50 mM MES (pH 6.0)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.52 α = 90
b = 99 β = 102.32
c = 63.05 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 MARMOSAIC 325 mm CCD Si(111) and Si(220) double crystal 2011-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.9791 SSRL BL9-2

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
1.22 29.41 99.88 -- -- -- 4.6 -- 221938 -- -- --
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)
1.219 1.263 98.99 -- -- -- 3.6 --

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
SAD 1.219 29.407 -- 1.34 -- 221908 11141 99.86 -- 0.1405 0.1396 0.1583 --
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 1.2194 1.2332 -- 354 6836 0.2088 0.2401 -- 97.0
X Ray Diffraction 1.2332 1.2478 -- 390 6966 0.1945 0.1962 -- 100.0
X Ray Diffraction 1.2478 1.263 -- 345 7033 0.187 0.1887 -- 100.0
X Ray Diffraction 1.263 1.279 -- 337 7017 0.1715 0.1855 -- 100.0
X Ray Diffraction 1.279 1.2958 -- 378 6999 0.167 0.2126 -- 100.0
X Ray Diffraction 1.2958 1.3135 -- 339 7100 0.1575 0.1834 -- 100.0
X Ray Diffraction 1.3135 1.3323 -- 348 7037 0.146 0.1645 -- 100.0
X Ray Diffraction 1.3323 1.3522 -- 391 6956 0.1399 0.1695 -- 100.0
X Ray Diffraction 1.3522 1.3733 -- 365 7045 0.1351 0.1614 -- 100.0
X Ray Diffraction 1.3733 1.3958 -- 392 7019 0.1304 0.1552 -- 100.0
X Ray Diffraction 1.3958 1.4199 -- 379 6991 0.1257 0.1573 -- 100.0
X Ray Diffraction 1.4199 1.4457 -- 351 7005 0.123 0.1473 -- 100.0
X Ray Diffraction 1.4457 1.4735 -- 365 7040 0.118 0.1433 -- 100.0
X Ray Diffraction 1.4735 1.5036 -- 393 7051 0.1138 0.1555 -- 100.0
X Ray Diffraction 1.5036 1.5363 -- 411 6951 0.1091 0.1321 -- 100.0
X Ray Diffraction 1.5363 1.572 -- 380 7023 0.1072 0.1445 -- 100.0
X Ray Diffraction 1.572 1.6113 -- 408 7000 0.1058 0.1363 -- 100.0
X Ray Diffraction 1.6113 1.6549 -- 368 7013 0.1058 0.1412 -- 100.0
X Ray Diffraction 1.6549 1.7036 -- 382 7035 0.1093 0.1381 -- 100.0
X Ray Diffraction 1.7036 1.7586 -- 351 7047 0.1141 0.1337 -- 100.0
X Ray Diffraction 1.7586 1.8214 -- 350 7022 0.1161 0.1355 -- 100.0
X Ray Diffraction 1.8214 1.8943 -- 425 7015 0.1226 0.138 -- 100.0
X Ray Diffraction 1.8943 1.9805 -- 368 7033 0.1267 0.1479 -- 100.0
X Ray Diffraction 1.9805 2.0849 -- 352 7071 0.1288 0.1436 -- 100.0
X Ray Diffraction 2.0849 2.2155 -- 376 7041 0.1329 0.1514 -- 100.0
X Ray Diffraction 2.2155 2.3865 -- 350 7079 0.1378 0.1593 -- 100.0
X Ray Diffraction 2.3865 2.6265 -- 362 7077 0.1514 0.1665 -- 100.0
X Ray Diffraction 2.6265 3.0063 -- 382 7057 0.1582 0.1784 -- 100.0
X Ray Diffraction 3.0063 3.7863 -- 344 7088 0.1546 0.1739 -- 100.0
X Ray Diffraction 3.7863 29.4159 -- 405 7120 0.1472 0.1544 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_plane_restr 0.005
f_dihedral_angle_d 16.139
f_angle_d 0.875
f_chiral_restr 0.079
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6251
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 662

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155)
HKL-2000 data reduction
SCALEPACK data scaling
SOLVE phasing
RESOLVE model building
Coot model building
ARP model building