X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.3
Temperature 277.0
Details 0.2M MgCl2, 0.1M HEPES, 30-40% PEG400, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 141.36 α = 90
b = 141.36 β = 90
c = 42.69 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2011-09-15
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X6A 0.99 NSLS X6A

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
1.5 45 98.0 -- 0.065 -- -- -- 48165 -- 3.0 --
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)
1.7 -- 99.0 0.065 0.58 41.0 9.5 --

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 1.7 45.0 -- 1.37 -- 48163 4817 99.99 -- 0.1635 0.161 0.1858 --
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 1.7003 1.7196 -- 160 1441 0.2401 0.3074 -- 100.0
X Ray Diffraction 1.7196 1.7399 -- 156 1398 0.2107 0.2344 -- 100.0
X Ray Diffraction 1.7399 1.7611 -- 157 1414 0.206 0.2554 -- 100.0
X Ray Diffraction 1.7611 1.7834 -- 160 1441 0.1906 0.2111 -- 100.0
X Ray Diffraction 1.7834 1.8069 -- 154 1393 0.1853 0.2384 -- 100.0
X Ray Diffraction 1.8069 1.8316 -- 159 1420 0.1734 0.2093 -- 100.0
X Ray Diffraction 1.8316 1.8578 -- 160 1451 0.1663 0.2022 -- 100.0
X Ray Diffraction 1.8578 1.8855 -- 155 1399 0.1508 0.203 -- 100.0
X Ray Diffraction 1.8855 1.915 -- 160 1431 0.1585 0.2064 -- 100.0
X Ray Diffraction 1.915 1.9464 -- 160 1445 0.1534 0.2017 -- 100.0
X Ray Diffraction 1.9464 1.9799 -- 155 1397 0.153 0.1817 -- 100.0
X Ray Diffraction 1.9799 2.0159 -- 161 1448 0.153 0.1895 -- 100.0
X Ray Diffraction 2.0159 2.0547 -- 158 1417 0.1521 0.2014 -- 100.0
X Ray Diffraction 2.0547 2.0967 -- 157 1419 0.1522 0.1888 -- 100.0
X Ray Diffraction 2.0967 2.1422 -- 163 1458 0.1487 0.1954 -- 100.0
X Ray Diffraction 2.1422 2.1921 -- 156 1407 0.1466 0.175 -- 100.0
X Ray Diffraction 2.1921 2.2469 -- 163 1468 0.1431 0.1706 -- 100.0
X Ray Diffraction 2.2469 2.3076 -- 156 1406 0.1523 0.2049 -- 100.0
X Ray Diffraction 2.3076 2.3756 -- 161 1443 0.1507 0.1777 -- 100.0
X Ray Diffraction 2.3756 2.4522 -- 158 1431 0.1471 0.1708 -- 100.0
X Ray Diffraction 2.4522 2.5399 -- 163 1460 0.1494 0.1797 -- 100.0
X Ray Diffraction 2.5399 2.6416 -- 161 1451 0.1475 0.1829 -- 100.0
X Ray Diffraction 2.6416 2.7618 -- 160 1433 0.1418 0.1772 -- 100.0
X Ray Diffraction 2.7618 2.9074 -- 161 1456 0.1518 0.1929 -- 100.0
X Ray Diffraction 2.9074 3.0895 -- 164 1467 0.1559 0.171 -- 100.0
X Ray Diffraction 3.0895 3.328 -- 162 1464 0.1512 0.1852 -- 100.0
X Ray Diffraction 3.328 3.6628 -- 164 1474 0.1522 0.155 -- 100.0
X Ray Diffraction 3.6628 4.1926 -- 166 1492 0.1523 0.1695 -- 100.0
X Ray Diffraction 4.1926 5.2813 -- 169 1518 0.1599 0.1584 -- 100.0
X Ray Diffraction 5.2813 50.0006 -- 178 1604 0.2176 0.2345 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -2.7283
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.7283
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.4565
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.076
f_dihedral_angle_d 14.681
f_angle_d 1.005
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3173
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 368

Software

Computing
Computing Package Purpose
HKL-3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
AMoRE Structure Solution
PHENIX (phenix.refine: dev_845) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.2_862) refinement
AMoRE model building
HKL-3000 data collection